SAES-422 Multistate Research Activity Accomplishments Report
Sections
Status: Approved
Basic Information
- Project No. and Title: NC1010 : Interpreting Cattle Genomic Data: Biology, Applications and Outreach (NC-209)
- Period Covered: 10/01/2002 to 09/01/2003
- Date of Report: 12/03/2003
- Annual Meeting Dates: 10/04/2003 to 10/05/2003
Participants
Matthews, James (jmatthew@uky.edu) and Bullock, Darrh (dbullock@uky.edu) - University of Kentucky; Henderson, David (dnadave@ag.arizona.edu) - University of Arizona; Reecy, James (jreecy@iastate.edu) - Iowa State University; Davis, Mike davis.28@osu.edu) - Ohio State University; Burton, Jeanne (burton@jpilot.msu.edu) - Michigan State University; Da, Yang (yda@umn.edu) - University of Minnesota; Dentine, Gretel (mrdentine@cals.wisc.edu) - University of Wisconsin - Administrative Advisor; Hamernik, Deborah (dhamernik@csrees.usda.gov) USDA/CSREES <p> Members Absent:; Hoeschele, Ina (inah@vt.edu) - Virginia Tech; Rodriguez-Zas, Sandra (rodgrzzs@uiuc.edu) - University of Illinios; Crooker, Brian, (crook001@umn.edu), Fahrenkrug, Scott (fahre001@umn.edu), Ponce de Leon, Abel (apl@umn.edu) and Hanson, Les (hanse009@umn.edu) - University of Minnesota; Marshall, Don - South Dakota State University; Gill, Clare (clare-gill@ancs.tamu.edu), Spencer, Thomas (tspencer@ansc.tamu.edu), and David Adelson (david.adelson@tamu.edu) - Texas A&M University; Kerr, David (dkerr@zoo.uvm.edu) and Zhao, Feng-Qi (fzhao@zoo.uvm.edu) - University of Vermont; Jerry, Joe (jjerry@vasci.umass.edu) - University of Massachussetts; Medrano, Juan (jfmedrano@ucdavis.edu) and Van Eenennaam, Alison (alvaneenennaam@ucdavis.edu) - University of California, Davis; Ashwell, Melissa (mashwell@anri.barc.usda.gov) USDA-ARS-Beltsville; Vallejo, Roger (rvallejo@psu.edu); Pennsylvania State University. <p> Guests in Attendance for Entire Meeting:; Jerry Taylor - University of Missouri; Curt van Tassell (curtvt@aipl.arsusda.gov) - USDA Beltsville; John Pollack - Cornell University; Sally Madsen (MI graduate student); Brian Zanghi (UK graduate student); Kevin Veach (UK staff member). <p> Guests in Attendance for Invited Speaker Session:; Bob Harmon (Chair, UK Department of Animal Science); James Strickland (Research Leader, USDA-ARS-FAPRU); Jim Boling (UK faculty member); David Harmon (UK faculty member); Geri Sipes (UK graduate student); Edwina Miles (UK graduate student); Beth Kitts (UK graduate student); Laurentia Van Rensburg (UK graduate student).
The meeting was held October 4, 2003 in the Weldon Suite of the Goode Barn facility, located on the campus of the University of Kentucky, Lexington. Dr. Jamie Matthews, 2003 Chairperson of NC-1010 organized and chaired the meeting.
The following agenda was followed:
8 AM: Welcome from Bob Harmon (Chairperson, Department of Animal Science)
8 9 AM: Invited Talk and Discussion: What Genetic Information Does the Beef Industry Need?; Speaker: Dr. Pollak, Cornell University and the National Beef Cattle Evaluation Consortium
9 - 10: Invited Talk 2 and Discussion: What Genetic Information Does The Dairy Industry Need?; Speaker: Dr. Curt Van Tassell, Gene Evaluation and Mapping Laboratory, USDA-ARS, BARC
10 11 AM: Invited Talk 3 and Discussion: Expected Outcomes from the Jointly-funded (NHGRI/State of Texas/Industry) Bovine Genome Sequencing Project: Information, Reagents, Methodologies. Speaker: Dr. Jeremy Taylor, Wurdack Chair in Animal Genomics, University of Missouri, Columbia.
11 AM - 11:15: Update on CSREES Funding Opportunities; Speaker: Dr. Deborah Hamernik; USDA-CSREES (National Program Director, Animal Physiology; Program Director, NRI Bovine Genome Sequencing Program; Program Director, Biotechnology Risk Assessment Research Grants)
11:30 AM 2:30 PM: Travel to and tour of the new University of Kentucky Agriculture Research Center
2:30 6 PM: Station Reports (approximately 30 min presentation and discussion) from IA, USDA-NADC, AZ, MI, OH, MN, KY.
6:30 PM 7:30 PM NC-1010 Business Meeting:
Dr. Margaret Dentine (Administrative Advisor) discussed several issues relating to NC-1010 function. (1) The NIMMS website was introduced to the group, as was the need to annually file reports using this system. It was noted that reports should reference project proposal milestones. It also was noted that the NIMSS website could be used for communication among Project members. (2) The poor current and past attendance by some NC-1010 participant stations was noted and identified as a weakness of this project. Dr. Dentine suggested sending a letter after missing one meeting to absent stations, followed by expulsion of stations that miss two meetings. (3) The excellence of the Invited Speaker Program for the present meeting was noted.
Dr. Alison Van Eenennaam (CA) was elected (in absentia with her permission) chairperson for 2004. Dr. David Henderson (AZ) was elected secretary for 2004.
The possibility of the NC-1010 Project hosting a one-half day workshop dealing with relevant issues associated with microarray and proteomic analyses at the 2005 PAG meetings was discussed. Dr. Deb Hamernik (USDA Administrator) suggested coupling the workshop with the bovine species group (NRSP-8). Dr. James Reecy agreed to investigate this possibility. Dr. Dentine suggested that the title of the workshop should be specific and related to NC-1010s project proposal and objectives, especially with regard to goal of hosting a hands-on workshop, as dictated by Objective III of the NC-1010 project proposal. Dr. Dentine also proposed an analysis competition similar to that for the MGED or GAW meetings. Dr. Yang Da agreed to organize the workshop.
The impending launch of the nascent NC-1010 website was discussed. (1) It was agreed that a one-page producer-targeted handout (Marker-Assisted Selection in Beef Cattle) prepared by Dr. Allison Van Eenennaam was appropriate and could act as a prototype for similar outreach information, with the provision that the flyer be modified to indicate an affiliation by the NC-1010 project. (2) The site for the NC-1010 website was discussed. Dr. Dentine noted that NIMMS would not be a good choice. An interim solution was devised whereby CA would house the site during its continuing development, with the intent that another station likely take over this responsibility once it was fully operational.
The issue of absentee members and potential recruitment of new NC-1010 members was addressed further. (1) It was noted that the anticipated attendance by IL and CA representatives to the present meeting did not occur due to illness. After discussion, it was agreed that Dr. Dentine would contact Experiment Station Directors of absent NC-1010 members to query interest in continued participation. It was suggested the a formal letter outlining this issue be sent to all members of the project by e-mail, in addition to a hard copy being sent to those members who had missed the last two meetings. (2) Specific suggestions were made to extend invitations to Jerry Taylor (University of Missouri), Artur Rosa (as SDSU representative), and Hasan Khatib (University of Wisconsin) to become NC-1010 members. Additionally, suggestions were made to send a general membership invitation to all Agricultural Experiment Station Directors, and to USDA-ARS-MARC scientists. To entice new membership, suggestions were made to invite perspective members to the 2005 meeting and to send them NC-1010s new webpage link.
It was agreed that our next full meeting would be in 2005, in conjunction with the 2005 Plant and Animal Genome Meeting.
The 2003 annual meeting of NC-1010 was adjourned about 7:30 PM
Following adjournment, a catered meal was served to participants in the Weldon Suite.
The following agenda was followed:
8 AM: Welcome from Bob Harmon (Chairperson, Department of Animal Science)
8 9 AM: Invited Talk and Discussion: What Genetic Information Does the Beef Industry Need?; Speaker: Dr. Pollak, Cornell University and the National Beef Cattle Evaluation Consortium
9 - 10: Invited Talk 2 and Discussion: What Genetic Information Does The Dairy Industry Need?; Speaker: Dr. Curt Van Tassell, Gene Evaluation and Mapping Laboratory, USDA-ARS, BARC
10 11 AM: Invited Talk 3 and Discussion: Expected Outcomes from the Jointly-funded (NHGRI/State of Texas/Industry) Bovine Genome Sequencing Project: Information, Reagents, Methodologies. Speaker: Dr. Jeremy Taylor, Wurdack Chair in Animal Genomics, University of Missouri, Columbia.
11 AM - 11:15: Update on CSREES Funding Opportunities; Speaker: Dr. Deborah Hamernik; USDA-CSREES (National Program Director, Animal Physiology; Program Director, NRI Bovine Genome Sequencing Program; Program Director, Biotechnology Risk Assessment Research Grants)
11:30 AM 2:30 PM: Travel to and tour of the new University of Kentucky Agriculture Research Center
2:30 6 PM: Station Reports (approximately 30 min presentation and discussion) from IA, USDA-NADC, AZ, MI, OH, MN, KY.
6:30 PM 7:30 PM NC-1010 Business Meeting:
Dr. Margaret Dentine (Administrative Advisor) discussed several issues relating to NC-1010 function. (1) The NIMMS website was introduced to the group, as was the need to annually file reports using this system. It was noted that reports should reference project proposal milestones. It also was noted that the NIMSS website could be used for communication among Project members. (2) The poor current and past attendance by some NC-1010 participant stations was noted and identified as a weakness of this project. Dr. Dentine suggested sending a letter after missing one meeting to absent stations, followed by expulsion of stations that miss two meetings. (3) The excellence of the Invited Speaker Program for the present meeting was noted.
Dr. Alison Van Eenennaam (CA) was elected (in absentia with her permission) chairperson for 2004. Dr. David Henderson (AZ) was elected secretary for 2004.
The possibility of the NC-1010 Project hosting a one-half day workshop dealing with relevant issues associated with microarray and proteomic analyses at the 2005 PAG meetings was discussed. Dr. Deb Hamernik (USDA Administrator) suggested coupling the workshop with the bovine species group (NRSP-8). Dr. James Reecy agreed to investigate this possibility. Dr. Dentine suggested that the title of the workshop should be specific and related to NC-1010s project proposal and objectives, especially with regard to goal of hosting a hands-on workshop, as dictated by Objective III of the NC-1010 project proposal. Dr. Dentine also proposed an analysis competition similar to that for the MGED or GAW meetings. Dr. Yang Da agreed to organize the workshop.
The impending launch of the nascent NC-1010 website was discussed. (1) It was agreed that a one-page producer-targeted handout (Marker-Assisted Selection in Beef Cattle) prepared by Dr. Allison Van Eenennaam was appropriate and could act as a prototype for similar outreach information, with the provision that the flyer be modified to indicate an affiliation by the NC-1010 project. (2) The site for the NC-1010 website was discussed. Dr. Dentine noted that NIMMS would not be a good choice. An interim solution was devised whereby CA would house the site during its continuing development, with the intent that another station likely take over this responsibility once it was fully operational.
The issue of absentee members and potential recruitment of new NC-1010 members was addressed further. (1) It was noted that the anticipated attendance by IL and CA representatives to the present meeting did not occur due to illness. After discussion, it was agreed that Dr. Dentine would contact Experiment Station Directors of absent NC-1010 members to query interest in continued participation. It was suggested the a formal letter outlining this issue be sent to all members of the project by e-mail, in addition to a hard copy being sent to those members who had missed the last two meetings. (2) Specific suggestions were made to extend invitations to Jerry Taylor (University of Missouri), Artur Rosa (as SDSU representative), and Hasan Khatib (University of Wisconsin) to become NC-1010 members. Additionally, suggestions were made to send a general membership invitation to all Agricultural Experiment Station Directors, and to USDA-ARS-MARC scientists. To entice new membership, suggestions were made to invite perspective members to the 2005 meeting and to send them NC-1010s new webpage link.
It was agreed that our next full meeting would be in 2005, in conjunction with the 2005 Plant and Animal Genome Meeting.
The 2003 annual meeting of NC-1010 was adjourned about 7:30 PM
Following adjournment, a catered meal was served to participants in the Weldon Suite.
Accomplishments
OBJECTIVE 1 ACCOMPLISHMENTS:
Year 2003 Milestone A: Develop Functional cDNA Microarrays for Distribution. Significant progress has been made in the effort to generate functional cDNA arrays with the development of two cDNA resources. (1) A cDNA microarray containing 18,263 unique expressed sequence tag transcripts that is derived from many different tissues types and various physiological states has been developed (MI). A web-accessible database (http://www.nbfgc.msu.edu) has been established to provide pertinent data relating to this microarray. (2) A different cDNA microarray has been completed (AZ) that contains about 4,600 cDNA sequences printed in triplicate, with the vast majority representing three primary tissues: mammary, pituitary and digestive tract.
Year 2003 Milestone B: Initiate cDNA Microarray and Proteomics Experiments in Two Model Systems Each. This goal has been met with the use of developed cDNA chips for evaluation of gene expression profiles at 5 Experiment Stations under 7 model systems and the initiation of proteomic experiments (KY) in two model systems. (1) For gut epithelia, microarray evaluation of mRNA levels (two arrays per tissue) of the rumen, large intestine, and small intestine is ongoing (IL). Two response variables are being studied, the ratio of tissue to reference intensities and the intensities of each sample. For mammary tissue, (2) the effects of heat stress and media supplements such as prostaglandin E2 on growth of primary bovine mammary epithelial cells in collagen gels have been performed (AZ), whereas statistical analysis of this study is underway. (3) Development of a genomic analysis of mammary epithelial cell response to infection also is ongoing (VT), using primary cells infected with live Staphylococcus aureus, or exposed to lipopolysacharide (LPS) endotoxin from Escherichia coli. (4) The molecular genetic basis of Escherichia coli-induced mastitis also is ongoing (PA) using a commercially-available mouse microarray (GENE CHIP Mouse Expression Set 430, Affymetrix) to identify candidate genes for host genetic risk factors affiliated with E. coli induced inflammation. (5) The parturition-induced changes in neutrophil gene expression is being evaluated (MI) using a 1,056 cDNA microarray developed from bovine total leucocytes (BOTL-3). (6) This same BOTL-3 cDNA microarray is being used (MI) to evaluate alteration of ileal tissue gene expression patterns in Johnes infected and non-infected cattle, (7) whereas another cDNA microarray was used (MI) to compare gene expression profiles of peripheral blood mononuclear cells isolated from Johnes infected and non-infected cattle. (8) A proteomic approach (IEF, PAGE, mass spectrometry) to identifying regulatory proteins that control amino acid transport and metabolism capacity in cattle tissue has been initiated (KY). Protein expression profiles of gut epithelia, skeletal muscle, and/or adipose tissues collected from one physiological developmental (suckling, weanling, backgrounding, vs. fattening) and one nutrient partitioning (chlortetracyline, anabolic steroid, vs. no tissue composition-altering agent) model are being evaluated.
Other Projects: (1) Transgenic modification of the composition of fatty acids in milk fat is being evaluated in transgenic mice generated by pronuclear microinjection of primary fatty acid synthesising genes and in stably-transfected mammary epithelial cells (CA). In a complementary study that seeks to modify the triacylglyceride structure of milk fat (CA), the echidna mammary lysophosphatidic acid acyltransferase gene is being cloned. (2) Associations between weights, gains, and carcass traits and polymorphisms in seven candidate genes of the insulin-like growth factor I and two genes involved with meat tenderness were and/or are being evaluated in Angus beef cattle from high and low IGF-I selection lines (OH). In addition, studies are being conducted to establish the relationships between selection lines and age of heifer puberty, and the relationship between IGF-I and male and female reproductive traits in cattle divergent in blood serum IGF-I levels. (3) A project (VT) to establish the distribution and regulation of glucose transporters to support whole-animal glucose homeostasis in mammary tissue is being well-advanced with the full-length cloning of bovine facilitative and concentrative glucose transporters, and characterization of their expression by liver, lung, kidney, spleen, intestine, skeletal muscle, and mammary tissues. (4) The influence of bovine viral diarrhea virus (BVDV) infection on the typical pattern of gene expression in bovine cells is being characterized using serial analysis of gene expression (SAGE) (USDA-ARS-NADC). To date, 7 SAGE libraries have been constructed and sequenced from BVDV-infected and -noninfected MDBK and BL3 cells, circulating gamma/delta T lymphocytes, and ileal Peyers patch follicular B lymphocytes. (5) In accordance with related cDNA microarray experiments, the putative mechanisms of Mycobacterium paratuberculosis-induced Johnes disease are being further investigated (MI) by evaluating the putative alteration in gene expression of immortalized bovine macrophage cells, peripheral blood mononuclear cells, intestinal legions, and/or mesenteric lymph nodes in three separate experiments.
Year 2003 Milestone C: Continue Fine Mapping Using CDDR, DBDR, and Other Available Resource Populations. Five Experiment Stations continue work in this area. (1) Development of a cattle relational quantitative trait loci (QTL) database and browser compiling QTL and sequence information as a tool for comparative mapping and gene discovery continues (CA). The database will use a Generic Genome Browser (http://www.gmod.org), GBrowse, as a customizable software package for genome annotations browsing, and the backbone for the annotation will be human and mouse sequence data available from NCBI. (2) Work also continues (CA) towards development of an AA and BB kappa-casein and beta-lactoglobulin herd of lactating dairy cows to improve cheese yield in dairy cattle, using marker-assisted selection. (3) Using genotypic data from University of Illinois/ARO-Israel and USDA-ARS-BARC research groups, the same data used last year to identify QTL affecting milk production and pregnancy rate, 15 putative QTL have been identified for several conformational traits (USDA-ARS-BARC). (4) Using this same set of genotypic data, Holstein sire families are also being evaluated (IA, USDA-ARS-NADC) to identify putative QTL affecting perinatal survival of calves. (5) Generation of a bovine Y chromosome (BTAY) bacterial artificial chromosome (BAC) contig map and a high-resolution BAC-STS-RH map continues with the sequencing of 1400 BAC clones (MN) and construction of a high-resolution BAC-STS RH map. In addition, (6) characterization of BTAY microsatellite polymorphisms in DNA cattle, sheep, and goats is ongoing (MN) for the development of markers for use in genome analyses of Y-chromosome haplotypes in these species.
OBJECTIVE 2 ACCOMPLISHMENTS: Interpret and Apply Genomics and Proteomics Information by Developing Statistical/bioinformatics Methods and Utilizing Molecular Tools in Cattle.
Year 2003 Milestones A&B: Establish Microarray Designs (A) and Methods to Handle Microarray False Positives and Data Analysis (B). These milestones have been met by (1) the development of Bayesian and Factor Analysis statistical methods for microarray experiments (two) that assessed expression patterns of genes that encode proteins of various metabolic pathways (AZ); (2) by evaluation of normalization, replication, and significance tests used in cDNA microarray experiments (four) using robust local regression technique, ANOVA models and mixed model approaches (MI); (3) and by the design and evaluation of two-dye cNDA microarrays using alternative representations of the transcript level and associated models (IL). In addition, progress towards development of efficient algorithms to invert the gametic covariance matrix for the marked QTLs is well underway with development of an improved approximation of the gametic covariance matrix for marker assisted genetic evaluation by Best Linear Unbiased Prediction (BLUP) (IA).
Year 2004 Milestone A: Establish Recommendations for Optimal Gene Mapping and Functional Genomics Study Designs. Progress towards this Year 2004 milestone already has been made with the analysis of disease simulation software to detect genes for clinical mastitis in cattle families (PA).
Year 2004 Milestone B: Establish Statistical Methods for Mapping QTL with Non-additive Effects. Good progress has been made toward this goal in three studies. (1) A mixed model method combining marker and phenotypic information has been developed (MN) for genetic evaluation using BLUP. (2) A study (MN) to assess the effect of genetic sampling and chiasm interference on the accuracy of QTL mapping indicates that inclusion of chiasma interference in QTL analysis improves mapping accuracy. (3) A cost-effectiveness assessment (MN) of optimum marker spacing for QTL detection concludes that the optimum marker spacing for a genome scan ranges from 30 cM to 4 cM.
OBJECTIVE 3 ACCOMPLISHMENTS: Develop and Deliver Educational Materials About Bovine Genomics Research to Consumers and Stakeholders.
Year 2003 Milestone: Design and Location of Web Site Finalized. Year 2004 Milestone: Web Site Contents Fully Developed. Year 2005 Milestone A: Launch Web Site. The milestone for Year 2003 has been met with the development (CA, MI) of a preliminary website for NC1010 (http://animalscience.ucdavis.edu/LivestockBiotechnology/), while milestones for Years 2004 and 2005 already are nearing attainment. The current website has links to the NC1010 goals, participant contact links, bovine and other species genomic databases, cattle extension webpages, and breed associations. In addition, an outreach section currently contains a prototype producer-targeted handout and Powerpoint presentation (Marker-Assisted Selection in Beef Cattle) and provides links to relevant conferences and workshops. The web site will be launched (CA) in 2004 and hosted by Michigan State University (MI).
Year 2005 Milestone B: Host an Outreach Workshop at the 2005 Plant and Animal Genome (PAG) Meeting. Attainment of this milestone also is well underway with the development (MN) of a tentative agenda and contacting of the PAG organizing committee with our intentions to conduct a Quantitative Genomics/Proteomics workshop. The current workgroup for this putative NC-1010 workshop includes NC-1010 members that possess statistical, genetic, and biological research expertise (AZ, IA, IL, KY, MI, MN, PA, TX, USDA-ARS-BARC) and is being co-organized by MN and AZ.
Complementing the stated milestones for Objective 3, and acting as groundwork for Year 2005 Milestone B, an International Symposium on Animal Functional Genomics was hosted by MI (May 2003). One hundred-twenty academic, government, and/or industry administrators and researchers, representing 15 countries, assembled to learn the concepts and practical details of high-throughput gene expression profiling. An implicit goal of Objective 3 is the cross-education of industry representatives and academic and government researchers. Progress towards this goal has been made through the Invited Speaker Program for our 2004 Annual NC-1010 meeting. Three speakers presented current prospectuses for genomic-based research needs of the beef and dairy cattle industries and research communities. Importantly, two of the speakers participated in the whole meeting, contributing greatly to discussions of individual Experiment Station Reports.
Year 2003 Milestone A: Develop Functional cDNA Microarrays for Distribution. Significant progress has been made in the effort to generate functional cDNA arrays with the development of two cDNA resources. (1) A cDNA microarray containing 18,263 unique expressed sequence tag transcripts that is derived from many different tissues types and various physiological states has been developed (MI). A web-accessible database (http://www.nbfgc.msu.edu) has been established to provide pertinent data relating to this microarray. (2) A different cDNA microarray has been completed (AZ) that contains about 4,600 cDNA sequences printed in triplicate, with the vast majority representing three primary tissues: mammary, pituitary and digestive tract.
Year 2003 Milestone B: Initiate cDNA Microarray and Proteomics Experiments in Two Model Systems Each. This goal has been met with the use of developed cDNA chips for evaluation of gene expression profiles at 5 Experiment Stations under 7 model systems and the initiation of proteomic experiments (KY) in two model systems. (1) For gut epithelia, microarray evaluation of mRNA levels (two arrays per tissue) of the rumen, large intestine, and small intestine is ongoing (IL). Two response variables are being studied, the ratio of tissue to reference intensities and the intensities of each sample. For mammary tissue, (2) the effects of heat stress and media supplements such as prostaglandin E2 on growth of primary bovine mammary epithelial cells in collagen gels have been performed (AZ), whereas statistical analysis of this study is underway. (3) Development of a genomic analysis of mammary epithelial cell response to infection also is ongoing (VT), using primary cells infected with live Staphylococcus aureus, or exposed to lipopolysacharide (LPS) endotoxin from Escherichia coli. (4) The molecular genetic basis of Escherichia coli-induced mastitis also is ongoing (PA) using a commercially-available mouse microarray (GENE CHIP Mouse Expression Set 430, Affymetrix) to identify candidate genes for host genetic risk factors affiliated with E. coli induced inflammation. (5) The parturition-induced changes in neutrophil gene expression is being evaluated (MI) using a 1,056 cDNA microarray developed from bovine total leucocytes (BOTL-3). (6) This same BOTL-3 cDNA microarray is being used (MI) to evaluate alteration of ileal tissue gene expression patterns in Johnes infected and non-infected cattle, (7) whereas another cDNA microarray was used (MI) to compare gene expression profiles of peripheral blood mononuclear cells isolated from Johnes infected and non-infected cattle. (8) A proteomic approach (IEF, PAGE, mass spectrometry) to identifying regulatory proteins that control amino acid transport and metabolism capacity in cattle tissue has been initiated (KY). Protein expression profiles of gut epithelia, skeletal muscle, and/or adipose tissues collected from one physiological developmental (suckling, weanling, backgrounding, vs. fattening) and one nutrient partitioning (chlortetracyline, anabolic steroid, vs. no tissue composition-altering agent) model are being evaluated.
Other Projects: (1) Transgenic modification of the composition of fatty acids in milk fat is being evaluated in transgenic mice generated by pronuclear microinjection of primary fatty acid synthesising genes and in stably-transfected mammary epithelial cells (CA). In a complementary study that seeks to modify the triacylglyceride structure of milk fat (CA), the echidna mammary lysophosphatidic acid acyltransferase gene is being cloned. (2) Associations between weights, gains, and carcass traits and polymorphisms in seven candidate genes of the insulin-like growth factor I and two genes involved with meat tenderness were and/or are being evaluated in Angus beef cattle from high and low IGF-I selection lines (OH). In addition, studies are being conducted to establish the relationships between selection lines and age of heifer puberty, and the relationship between IGF-I and male and female reproductive traits in cattle divergent in blood serum IGF-I levels. (3) A project (VT) to establish the distribution and regulation of glucose transporters to support whole-animal glucose homeostasis in mammary tissue is being well-advanced with the full-length cloning of bovine facilitative and concentrative glucose transporters, and characterization of their expression by liver, lung, kidney, spleen, intestine, skeletal muscle, and mammary tissues. (4) The influence of bovine viral diarrhea virus (BVDV) infection on the typical pattern of gene expression in bovine cells is being characterized using serial analysis of gene expression (SAGE) (USDA-ARS-NADC). To date, 7 SAGE libraries have been constructed and sequenced from BVDV-infected and -noninfected MDBK and BL3 cells, circulating gamma/delta T lymphocytes, and ileal Peyers patch follicular B lymphocytes. (5) In accordance with related cDNA microarray experiments, the putative mechanisms of Mycobacterium paratuberculosis-induced Johnes disease are being further investigated (MI) by evaluating the putative alteration in gene expression of immortalized bovine macrophage cells, peripheral blood mononuclear cells, intestinal legions, and/or mesenteric lymph nodes in three separate experiments.
Year 2003 Milestone C: Continue Fine Mapping Using CDDR, DBDR, and Other Available Resource Populations. Five Experiment Stations continue work in this area. (1) Development of a cattle relational quantitative trait loci (QTL) database and browser compiling QTL and sequence information as a tool for comparative mapping and gene discovery continues (CA). The database will use a Generic Genome Browser (http://www.gmod.org), GBrowse, as a customizable software package for genome annotations browsing, and the backbone for the annotation will be human and mouse sequence data available from NCBI. (2) Work also continues (CA) towards development of an AA and BB kappa-casein and beta-lactoglobulin herd of lactating dairy cows to improve cheese yield in dairy cattle, using marker-assisted selection. (3) Using genotypic data from University of Illinois/ARO-Israel and USDA-ARS-BARC research groups, the same data used last year to identify QTL affecting milk production and pregnancy rate, 15 putative QTL have been identified for several conformational traits (USDA-ARS-BARC). (4) Using this same set of genotypic data, Holstein sire families are also being evaluated (IA, USDA-ARS-NADC) to identify putative QTL affecting perinatal survival of calves. (5) Generation of a bovine Y chromosome (BTAY) bacterial artificial chromosome (BAC) contig map and a high-resolution BAC-STS-RH map continues with the sequencing of 1400 BAC clones (MN) and construction of a high-resolution BAC-STS RH map. In addition, (6) characterization of BTAY microsatellite polymorphisms in DNA cattle, sheep, and goats is ongoing (MN) for the development of markers for use in genome analyses of Y-chromosome haplotypes in these species.
OBJECTIVE 2 ACCOMPLISHMENTS: Interpret and Apply Genomics and Proteomics Information by Developing Statistical/bioinformatics Methods and Utilizing Molecular Tools in Cattle.
Year 2003 Milestones A&B: Establish Microarray Designs (A) and Methods to Handle Microarray False Positives and Data Analysis (B). These milestones have been met by (1) the development of Bayesian and Factor Analysis statistical methods for microarray experiments (two) that assessed expression patterns of genes that encode proteins of various metabolic pathways (AZ); (2) by evaluation of normalization, replication, and significance tests used in cDNA microarray experiments (four) using robust local regression technique, ANOVA models and mixed model approaches (MI); (3) and by the design and evaluation of two-dye cNDA microarrays using alternative representations of the transcript level and associated models (IL). In addition, progress towards development of efficient algorithms to invert the gametic covariance matrix for the marked QTLs is well underway with development of an improved approximation of the gametic covariance matrix for marker assisted genetic evaluation by Best Linear Unbiased Prediction (BLUP) (IA).
Year 2004 Milestone A: Establish Recommendations for Optimal Gene Mapping and Functional Genomics Study Designs. Progress towards this Year 2004 milestone already has been made with the analysis of disease simulation software to detect genes for clinical mastitis in cattle families (PA).
Year 2004 Milestone B: Establish Statistical Methods for Mapping QTL with Non-additive Effects. Good progress has been made toward this goal in three studies. (1) A mixed model method combining marker and phenotypic information has been developed (MN) for genetic evaluation using BLUP. (2) A study (MN) to assess the effect of genetic sampling and chiasm interference on the accuracy of QTL mapping indicates that inclusion of chiasma interference in QTL analysis improves mapping accuracy. (3) A cost-effectiveness assessment (MN) of optimum marker spacing for QTL detection concludes that the optimum marker spacing for a genome scan ranges from 30 cM to 4 cM.
OBJECTIVE 3 ACCOMPLISHMENTS: Develop and Deliver Educational Materials About Bovine Genomics Research to Consumers and Stakeholders.
Year 2003 Milestone: Design and Location of Web Site Finalized. Year 2004 Milestone: Web Site Contents Fully Developed. Year 2005 Milestone A: Launch Web Site. The milestone for Year 2003 has been met with the development (CA, MI) of a preliminary website for NC1010 (http://animalscience.ucdavis.edu/LivestockBiotechnology/), while milestones for Years 2004 and 2005 already are nearing attainment. The current website has links to the NC1010 goals, participant contact links, bovine and other species genomic databases, cattle extension webpages, and breed associations. In addition, an outreach section currently contains a prototype producer-targeted handout and Powerpoint presentation (Marker-Assisted Selection in Beef Cattle) and provides links to relevant conferences and workshops. The web site will be launched (CA) in 2004 and hosted by Michigan State University (MI).
Year 2005 Milestone B: Host an Outreach Workshop at the 2005 Plant and Animal Genome (PAG) Meeting. Attainment of this milestone also is well underway with the development (MN) of a tentative agenda and contacting of the PAG organizing committee with our intentions to conduct a Quantitative Genomics/Proteomics workshop. The current workgroup for this putative NC-1010 workshop includes NC-1010 members that possess statistical, genetic, and biological research expertise (AZ, IA, IL, KY, MI, MN, PA, TX, USDA-ARS-BARC) and is being co-organized by MN and AZ.
Complementing the stated milestones for Objective 3, and acting as groundwork for Year 2005 Milestone B, an International Symposium on Animal Functional Genomics was hosted by MI (May 2003). One hundred-twenty academic, government, and/or industry administrators and researchers, representing 15 countries, assembled to learn the concepts and practical details of high-throughput gene expression profiling. An implicit goal of Objective 3 is the cross-education of industry representatives and academic and government researchers. Progress towards this goal has been made through the Invited Speaker Program for our 2004 Annual NC-1010 meeting. Three speakers presented current prospectuses for genomic-based research needs of the beef and dairy cattle industries and research communities. Importantly, two of the speakers participated in the whole meeting, contributing greatly to discussions of individual Experiment Station Reports.
Impacts
- Microarray and proteomic analyses identify specific biochemical pathways that support production traits and diseases, thus well-complementing DNA-characterization research to identify superior cattle.
- Establishment of statistical models and methods to provide adequate levels of confidence for interpretation of microarray, QTL, and marker-assisted selection data allows application of this basic research.
- Our current outreach activities of workshops, websites, and interactions with vested interest groups provide critical resources to the cattle industry.
Publications
ARIZONA
Henderson, D.A. 2003. A Bayesian Statistical Method for the Detection of Differential Gene Expression and Control of Multiple Hypothesis Testing With Gene Expression Microarray Data. International Symposium on Animal Functional Genomics, Michigan State University, East Lansing, MI.
Henderson, D.A., A. de la Fuente, P. Mendes, and I. Hoeschele. 2003. Factor analysis for the identification of metabolic pathways from microarray expression data. J. Comp. Biol., submitted.
Henderson, D.A., and I. Hoeschele. 2003. Bayesian Exploratory Factor Analysis with an Application to the Identification of Metabolic Pathways from Microarray Expression Data. Biostatistics, submitted.
Henderson, D.A. 2003. A Bayesian Statistical Method for the Detection of Differential Gene Expression and Control of Multiple Hypothesis Testing With Gene Expression Microarray Data. Bioinformatics, submitted.
Stiening, C.M., A.M. Hoying, D.A. Henderson, J.B. Hoying, P.C. Gentry, Y. Kobayashi, and R.J. Collier. 2003. Characterization of a 4,600-cDNA Bovine Microarray. J. Anim. Sci. 86:W22 Suppl. 1.
CALIFORNIA
Rincon, G. and J.F. Medrano. 2003. Single nucleotide polymorphism (SNP) genotyping of bovine milk protein genes using the tetra primer ARMS-PCR. Animal Breeding and Genetics 120:1-9.
Ward, W. 2003. Mammary Growth and Development in the High Growth (hg/hg) Mouse. M.S. Thesis.
Website for NC1010: http://animalscience.ucdavis.edu/LivestockBiotechnology/
ILLINOIS
Band, M. R., R. E. Everts, Z. L. Liu, D. E. Morin, J. U. Peled, S. L Rodriguez-Zas, and H. L. Lewin. 2003. Gene expression profiling of 17 cattle tissues reveals unique patterns related to tissue function. Plant, Animal and Microbe Genomes XI Conference. Jan. 11-15, 2003. Microarrays section. http://www.intl-pag.org/11/abstracts/P7a_P745_XI.html Unpublished presentation.
Loor, J. J., J. K. Drackley, H. M. Dann, R. E. Everts, S. L. Rodriguez-Zas, and H. A. Lewin. 2003. Mammary gene expression analysis in peripartal dairy cows using a bovine cDNA microarray. Journal Animal Science, 81(Suppl. 1): W8.
Loor, J. J., J. K. Drackley, H. M. Dann, R. E. Everts, S. L. Rodriguez-Zas, and H. A. Lewin. 2003. Hepatic gene expression analysis in peripartal dairy cows using a bovine cDNA microarray. Journal Animal Science, 81(Suppl. 1): W9.
Rodriguez-Zas, S. L., M. R. Band, R. E. Everts, B. R. Southey, Z. L. Liu, and H. A. Lewin. 2003. Analysis of gene expression patterns in the cattle digestive system. Journal Animal Science, 81(Suppl. 1): 628.
IOWA
Reecy, J.M., and Nettleton, D. (2002) Statistical Analysis of Gene Expression Data from Hypertrophying and Normal Muscle Tissue. International Society of Animal Genetics. Goettigen, Germany.
Reecy, J.M., Potts, J., and Smith, T.P.L. (2002) Beyond myostatin; the search for interacting alleles. PAG X proceedings W61.
Carson, J.A., D. Nettleton, and J.M. Reecy. 2001. Differential gene expression in the rat soleus muscle during early work overload-induced hypertrophy. The FASEB Journal Express Article 10.1096/fj.01-0544fje Published online December 14, 2001.
Stricker, C., M. Schelling, F. Du, I. Hoeschelle, S. A. Fernandez and R. L. Fernando. 2002. A comparison of efficient genotype samplers for complex pedigrees and multiple linked loci. 7th World Congress Genet. Appl. Livest. Prod. CD-ROM Communication N o 21-12.
Fernando, R. L., J. C. M. Dekkers and M. Soller. 2002. Controlling the proportion of false positives (PFP) in a multiple test genome scan for marker QTL linkage. 7th World Congress Genet. Appl. Livest. Prod. CD-ROM Communication N o 20-01.
KENTUCKY
Fan, M. Z., J. C. Matthews, D. G. Burrin, and D. Lackeyram. 2003. EAAC1 is the Major High-Affinity L-Glutamate Transporter and Expression is Upregulated During Differentiation of Neonatal Porcine Enterocytes. FASEB Journal 17(5):A305.
Gissendanner, S. J., N. M. P. Etienne, and J. C. Matthews. 2003. Differential Expression of EAAC1 and GLT-1 Glutamate Transporters by Bovine Epithelial Tissues is not Altered by Physiological Development. FASEB Journal 17(5):A305.
Gissendanner, S. J., N. M. P. Etienne, K. R. McLeod, and J. C. Matthews. 2003. The Pattern of EAAC1 and GLT-1 Glutamate Transporter Expression by Skeletal Muscle and Adipose Tissues of Fattening Cattle Differs from that of Glutamine Synthetase. FASEB Journal 17(5):A738.
Gissendanner, S. J., N. M. P. Etienne, K. R. McLeod, and J. C. Matthews. 2003. The Patterns of EAAC1 and GLT-1 Glutamate Transporters and Glutamine Synthetase Expression by Skeletal Muscle and Adipose Tissues Change as Cattle Grow and Fatten. Oral presentation, March 2003, MANRRS 18th Annual National Career Fair and Training Conference, Atlanta, GA.
Howell, J. A., A. D. Matthews, T. C. Welbourne, and J. C. Matthews. 2003. Content of Ileal EAAC1 and Hepatic GLT-1 High-Affinity Glutamate Transporters is Increased in Growing Versus Non-Growing Lambs, Paralleling Increased Tissue Concentrations of D- and L-Glutamate and Plasma Glutamine and Alanine. Journal of Animal Science 81:1030-1039.
Krehbeil, C. R. and J. C. Matthews. Absorption of Amino Acids and Peptides. 2003. In: J. P. F. DMello (Ed.) Amino Acids in Animal Nutrition, 2nd edition. Chapter 3, pp. 41-70. CAB International, Wallingford.
Novak, D. A. and J. C. Matthews. 2003. Glutamate transport by Rcho-1 cells derived from rat placenta. Pediatric Research 53(5):1-5.
MICHIGAN
Aho, A.D., A.M. McNulty, and P. M. Coussens. 2003. Enhanced expression of IL-1a and TRAF1 in ileal tissues of cattle infected with Mycobacterium paratuberculosis.
Infection and Immunity, 71(11), 6479-6486.
Burton, J., P. Coussens, M. VandeHaar, M. Allen, G. Smith, and J. Ireland. 2004. Functional Genomics and the Dairy Cow: From Genes to the Farm. Michigan Dairy Review. (paper copy in press for Jan 2004 issue; also see http://www.msu.edu/user/mdr/).
Burton, J.L., and R.J. Erskine. 2003. Mastitis and immunity: some new ideas for an old disease. Veterinary Clinics of North America: Food Animal Practice 19:1-45.
Rosa, G.J.M., R.J. Tempelman, S. Suchyta, S.A. Madsen, J.L. Burton, and P.M. Coussens, 2003. Normalization, replication, and significance tests in cDNA microarray experimentation. J. Dairy Sci. 86 (Suppl. 1):159 (abstr. 630).
Burton, J.L. 2003. Functional Genomics of the Stress-Immune Axis. International Agriculture Biotechnology Short Course. Michigan State University. May, July, and August, 2003.
Burton, J.L. 2003. Animal model: Neutrophil adhesion molecules and apoptosis in inflammation and parturition. Biomarkers of Pre-term Delivery Workshop, Michigan State University. March 21, 2003.
Chang, L-C., S.A. Madsen, P.S.D. Weber, T. Toelboell, and J.L. Burton. 2003. Glucocorticoid-Induced Down Regulation of Fas mRNA Abundance in Bovine Neutrophils. International Symposium on Animal Functional Genomics. May 9-11, 2003. Kellogg Center, Michigan State University. (poster presentation).
Coussens, P.M. 2003. A model for immune responses to M. avium subspecies paratuberculosis in cattle. Infection and Immunity (Submitted for Publication)
Coussens, P.M., A. Jeffers, and C. Colvin, 2003. Rapid and transient activation of gene expression in peripheral blood mononuclear cells from Johnes Disease positive cows exposed to Mycobacterium paratuberculosis in vitro. Microbial Pathogenesis (In press).
Coussens, P.M. C.J. Colvin, G.J.M. Rosa, J.Perez Laspiur, and M.D. Elftman. 2003. Evidence for a novel gene expression program in peripheral blood mononuclear cells from M. paratuberculosis infected cattle. Infection and Immunity 71(11), 6487-6498.
Coussens, P.M., N. Verman, M.A. Coussens, and A.M. McNulty. 2003. Cytokine gene expression in peripheral blood mononuclear cells and tissues of cattle infected with Mycobacterium avium subspecies paratuberculosis: Evidence for an inherent pro-inflammatory gene expression pattern. Infection and Immunity (Submitted for Publication).
Elftman M., P.M. Coussens, and J.J. Ireland. 2003. Effects of estrogen on bovine macrophage gene expression and function. International Symposium on Animal Functional Genomics, Michigan State University, May 9-11, 2003.
Ireland, J.J., and D.S. Burns. 2003. Numbers of antral follicles that grow during different follicular waves in individual cattle are highly repeatable. Abstract presented to 36th Annual Meeting of the Society for Study of Reproduction, July 19-22, Cincinnati, OH.
Jimenez-Krassel, F., and J.J. Ireland. 2003. The negative action of inhibin on estradiol production by bovine granulosa cells is calcium dependent. Abstract presented to 36th Annual Meeting of the Society for Study of Reproduction, July 19-22, Cincinnati, OH.
Jimenez-Krassel, F., Winn, M.E., Burns, D., Ireland, J.L.H., and Ireland, J.J. 2003. Evidence for a negative intrafollicular role for inhibin in regulation of estradiol production by granulosa cells. Endocrinology 144:1876-1886.
Kizilkaya, K., P. Carnier, A. Albera, G. Bittante, and R.J. Tempelman. 2003. Cumulative t-link threshold models for the genetic analysis of calving ease scores. Genetics, Selection, Evolution 35:489-512.
Kobayashi, Y., Huang, R., Yao, J., Jimenez-Krassel, F., Ireland, J.J., Coussens, P.M., and Smith, G.W. 2003. Differential expression of cocaine and amphetamine regulated transcript (CART) mRNA within the bovine ovary. Abstract presented to 36th Annual Meeting of the Society for Study of Reproduction, July 19-22, Cincinnati, OH.
Madsen, S.A., L-C. Chang, M-C. Hickey, G.J. M. Rosa, P.M. Coussens, and J.L. Burton. 2003. Microarray analysis of gene expression in blood neutrophils of parturient cows. Physiological Genomics (in press; also see http://physiolgenomics.physiology.org/papbyrecent.shtml).
Madsen, S.A., L-C. Chang, M-C. Hickey, P.M. Coussens, G.J.M. Rosa, and J.L. Burton. 2003. Gene expression profiling and apoptosis phenotyping indicate that parturient steroids promote survival in bovine blood neutrophils. International Symposium on Animal Functional Genomics. May 9-11, 2003. Kellogg Center, Michigan State University. (poster presentation).
Pagan, M., Davis, M.E., Stick, D.A., Simmen, R.C.M., Raney, N.E., Tempelman, R.J., and C.W. Ernst. 2003. Evaluation of serum insulin-like growth factor binding proteins (IGFBP) in Angus cattle divergently selected for serum IGF-I concentration. Domestic Animal Endocrinology (in press).
Suchyta, S.P., S. Sipkovsky, M. Coussens, R. Kruska, A. Jeffers, A. McNulty, R.J. Tempelman, R.G. Halgren, P.M. Saama, D.E. Bauman, Y.R. Boisclair, J.L. Burton, R.J. Collier, E.J. DePeters, T.A. Ferris, M.C. Lucy, M.A. McGuire, J.F. Medrano, T.R. Overton, T.P. Smith, G.W. Smith, T.S. Sonstegard, J.N. Spain, D.E. Spiers, J. Yao, and P.M. Coussens. 2003. Development and testing of a high-density cDNA microarray resource for cattle. Physiological Genomics (in press; also see http://physiolgenomics.physiology.org/cgi/reprint/00094.2003v1).
Toelboell, T., P.S.D. Weber, L-C. Chang, K. Buckham, and J.L. Burton. 2003. Dexamethasone-Induced Down Regulation of CD62L Gene Expression in Neutrophils is Mediated by the Glucocorticoid Receptor (GR). International Symposium on Animal Functional Genomics. May 9-11, 2003. Kellogg Center, Michigan State University. (poster presentation).
Tooker, B.C., and P.M. Coussens. 2003. Phagocytosis of M. paratuberculosis fails to activate expression of NADH Dehydrogenase and Nucleolin-Related Protein in bovine macrophagesImmunology Letters (Accepted for Publication).
Weber, P.S.D., T. Toelboell, J. Durrett-Tirrill, P.M. Saama, and J.L. Burton. 2003. Bone marrow neutrophils contribute minimally to the CD62L mRNA and protein expression profiles of blood neutrophils in glucocorticoid-challenged cattle. International Symposium on Animal Functional Genomics. May 9-11, 2003. Kellogg Center, Michigan State University. (poster presentation).
Yao, J., R. Huang, Y. Kobayashi, A. Bettegowda, P.M. Coussens, J.J. Ireland, and G.W. Smith. 2004. Identification and characterization of expression of JY-1: A novel oocyte-specific gene in cattle. Abstract presented to 36th Annual Meeting of the Society for Study of Reproduction, July 19-22, Cincinnati, OH.
Yao J, Ren X, Ireland JJ, Coussens PM, GW Smith. 2004. Generation of a bovine oocyte cDNA library: A valuable resource for identification of key oocyte-specific genes. Plant & Animal Genomes XII Conference, Town & Country Convention Center, San Diego, CA, January 10-14, 2004.
MINNESOTA
Chrystal, M.A. (2003) Marker assisted selection in dairy cattle using a mixed model approach. Ph.D. Thesis (Thesis advisor: Y. Da), Department of Animal Science, University of Minnesota, September 20, 2003.
Garbe, J. R. and Y. Da. (2003) Genealogy graphing for large complex populations: the example of European royal genealogy data. Journal of American Human Genetics, Supplement to Vol. 73, p.605, The 53rd Annual Meeting of The American Society of Human Genetics.
London, N. R. and Y. Da. (2003) Optimum marker spacing for QTL detection. Journal of American Human Genetics, Supplement to Vol. 73, p.615, The 53rd Annual Meeting of The American Society of Human Genetics.
London, N.R, J.R. Garbe, S.M. Schmutz, M.S. Abrahamsen, and Y. Da. (2003) Linkage analysis for mapping genes of sex-influenced traits. Mammalian Genome 14:261-267.
Patterson, E.E., J.R. Mickelson, Y. Da, M.C. Roberts, A. McVey, D. OBrien, G. Johnson, and P.J. Armstrong.(2003) Clinical characteristics and inheritance of idiopathic epilepsy in Vizslas. Journal of Veterinary Internal medicine. 17: 319-325.
Reed, K. M., L. D. Chaves, J. R. Garbe, Y. Da, and D. E. Harry. (2003) Allelic variation and genetic linkage of avian microsatellites in a new turkey population for genetic mapping. Cytogenetics and Genome Research (In press)
Wansheng Liu, Craig W. Beattie, F. Abel Ponce de Lesn. 2003. Bovine Y chromosome microsatellite polymorphisms. Cytogenet. Genome Res. (in press)
Wansheng Liu & F. Abel Ponce de Lesn. 2003. Development of a BAC-based physical map of the euchromatic region of the bovine Y-chromosome. Conference Abstract, PAG-XI. P586.
Wan-Sheng Liu, Craig W. Beattie, Noelle E. Cockett, F. Abel Ponce de Lesn. 2004. Comparative Analysis of 38 Bovine Y-Chromosome Microsatellites in Cattle, Sheep and Goat. Conference Abstract, PAG-XII. Submitted.
Xu, J. and Y. Da. (2003) Genetic sampling and chiasm interference affect QTL mapping accuracy. Journal of American Human Genetics, Supplement to Vol. 73, p.617, The 53rd Annual Meeting of The American Society of Human Genetics.
OHIO
Chung, H., S. Chen, D. Yoon, I. Cheong, S. Lee, M. Davis, and C. Hines. 2003. Detection of SNPs on the ovine skeletal muscle specific calpain gene using PCR-SSCP analysis. J. Anim. Sci. 81 (Suppl. 1):252.
Davis, M.E., S.L. Boyles, S.J. Moeller, and R.C.M. Simmen. 2003. Genetic parameter estimates for serum insulin-like growth factor I concentration and ultrasound measurements of backfat thickness and longissimus muscle area in Angus beef cattle. J. Anim. Sci. 81:2164-2170.
Ge, W., M.E. Davis, H.C. Hines, K.M. Irvin, and R.C.M. Simmen. 2003. Association of single nucleotide polymorphisms in the growth hormone and growth hormone receptor genes with blood serum insulin-like growth factor I concentration and growth traits in Angus cattle. J. Anim. Sci. 81:641-648.
Yilmaz, A., M.E. Davis, and R.C.M. Simmen. 2003. Estimation of (co)variance components for reproductive traits in Angus beef cattle divergently selected for blood serum IGF-I concentration. J. Anim. Sci. (submitted).
Yilmaz, A., M.E. Davis, H.C. Hines, and R.C.M. Simmen. 2003. Age at puberty in heifers divergently selected for blood serum IGF-I concentration. J. Anim. Sci. (submitted).
Yilmaz, A., M.E. Davis, and R.C.M. Simmen. 2003. Divergent selection for blood serum insulin-like growth factor I concentration does not change age of Angus heifers at puberty. J. Anim. Sci. 81 (Suppl. 1):255.
Yilmaz, A., M.E. Davis, R.C.M. Simmen, and M. Yamaguchi. 2003. Densitometric analysis of myofibrillar proteins in muscle samples from Angus bulls with high or low blood serum IGF-I concentration. J. Anim. Sci. 81 (Suppl. 1):314.
Zhao, Q., M.E. Davis, and H.C. Hines. 2003. Associations of polymorphisms in the Pit-1 gene with growth and carcass traits in Angus beef cattle. J. Anim. Sci. (submitted).
Yilmaz, A., M.E. Davis, R.C.M. Simmen, and H.C. Hines. 2003. Estimation of correlations of reproductive traits with blood serum IGF-I concentration in Angus beef cattle. J. Anim. Sci. 81 (Suppl. 1):315.
Zhao, Q., M.E. Davis, and H.C. Hines. 2002. Polymorphisms in the bovine Pit-1 gene and their associations with growth and carcass traits in beef cattle. Bos taurus Pit-1 gene, exon 3. GenBank Accession No. AY183915.
Zhao, Q., M.E. Davis, and H.C. Hines. 2002. Polymorphisms in the bovine Pit-1 gene and their associations with growth and carcass traits in beef cattle. Bos taurus Pit-1 gene, exon 4 and partial cds, bases 1 to 1353. GenBank Accession No. AY183916.
Zhao, Q., M.E. Davis, and H.C. Hines. 2002. Polymorphisms in the bovine Pit-1 gene and their associations with growth and carcass traits in beef cattle. Bos taurus Pit-1 gene, exon 4 and partial cds, bases 1 to 885. GenBank Accession No. AY183917.
PENNSYLVANIA
Vallejo, R.L., Y.L. Li, G.W. Rogers, and M.S. Ashwell. 2003. Genetic diversity and background linkage disequilibrium in the North American Holstein cattle population. J. Dairy Sci., Accepted.
Vallejo, R.L. 2003. Power to detect loci linked to common diseases of dairy cattle using identical-by-descent based methods of half-sib pair linkage analysis. J. Anim. Sci. 81:160 (Suppl. 1).
USDA-ARS-BARC
Koltes, J., Berger, P.J., Dekkers, J.C., Healey, M.H., Ashwell, M.S., Shanks, R.S., Schlesser, H., Lewin, H.A. Evidence for major quantitative trait loci affecting perinatal survival in two elite Holstein sire families. Proceedings of the John M. Airy Beef Cattle Genetics Symposium. 2003. p. 131.
Berger, P.J., Koltes, J., Healey, M.H., Ashwell, M.S., Shanks, R.S., Schlesser, H., Lewin, H.A. Putative quantitative trait loci affecting perinatal survial in eleven Holstein families. Journal of Dairy Science. 2003. v. 86. p. 161.
USDA-ARS-NADC
Neill, J.D., and J.F. Ridpath. 2003. Gene expression changes in BVDV2-infected MDBK cells. Biologicals 31:97-102.
Neill, J.D., and J.F. Ridpath. 2003. Gene expression changes in MDBK cells infected with genotype 2 bovine viral diarrhea virus. Vet. Microbiol. 96:301-312.
Neill, J.D., and J.F. Ridpath. 2003. Remodeling of cellular functions following infection with bovine viral diarrhea virus type 2 as determined using serial analysis of gene expression. International Symposium on Animal Functional Genomics, Michigan State University, East Lansing, MI.
Neill, J.D., and J.F. Ricpath. 2003. Serial analysis of gene expression in bovine viral diarrhea virus 2 infected cells provides evidence for inhibition of cap-dependent translation initiation. American Society for Virology , Davis CA.
VERMONT
Wellnitz, O. and D.E. Kerr. 2003. Establishment of a bovine cell-culture system to study the genomic response of mammary epithelial cells to infection with Staphylococcus aureus. Journal of Dairy Science 86 (Suppl. 1):92.
Henderson, D.A. 2003. A Bayesian Statistical Method for the Detection of Differential Gene Expression and Control of Multiple Hypothesis Testing With Gene Expression Microarray Data. International Symposium on Animal Functional Genomics, Michigan State University, East Lansing, MI.
Henderson, D.A., A. de la Fuente, P. Mendes, and I. Hoeschele. 2003. Factor analysis for the identification of metabolic pathways from microarray expression data. J. Comp. Biol., submitted.
Henderson, D.A., and I. Hoeschele. 2003. Bayesian Exploratory Factor Analysis with an Application to the Identification of Metabolic Pathways from Microarray Expression Data. Biostatistics, submitted.
Henderson, D.A. 2003. A Bayesian Statistical Method for the Detection of Differential Gene Expression and Control of Multiple Hypothesis Testing With Gene Expression Microarray Data. Bioinformatics, submitted.
Stiening, C.M., A.M. Hoying, D.A. Henderson, J.B. Hoying, P.C. Gentry, Y. Kobayashi, and R.J. Collier. 2003. Characterization of a 4,600-cDNA Bovine Microarray. J. Anim. Sci. 86:W22 Suppl. 1.
CALIFORNIA
Rincon, G. and J.F. Medrano. 2003. Single nucleotide polymorphism (SNP) genotyping of bovine milk protein genes using the tetra primer ARMS-PCR. Animal Breeding and Genetics 120:1-9.
Ward, W. 2003. Mammary Growth and Development in the High Growth (hg/hg) Mouse. M.S. Thesis.
Website for NC1010: http://animalscience.ucdavis.edu/LivestockBiotechnology/
ILLINOIS
Band, M. R., R. E. Everts, Z. L. Liu, D. E. Morin, J. U. Peled, S. L Rodriguez-Zas, and H. L. Lewin. 2003. Gene expression profiling of 17 cattle tissues reveals unique patterns related to tissue function. Plant, Animal and Microbe Genomes XI Conference. Jan. 11-15, 2003. Microarrays section. http://www.intl-pag.org/11/abstracts/P7a_P745_XI.html Unpublished presentation.
Loor, J. J., J. K. Drackley, H. M. Dann, R. E. Everts, S. L. Rodriguez-Zas, and H. A. Lewin. 2003. Mammary gene expression analysis in peripartal dairy cows using a bovine cDNA microarray. Journal Animal Science, 81(Suppl. 1): W8.
Loor, J. J., J. K. Drackley, H. M. Dann, R. E. Everts, S. L. Rodriguez-Zas, and H. A. Lewin. 2003. Hepatic gene expression analysis in peripartal dairy cows using a bovine cDNA microarray. Journal Animal Science, 81(Suppl. 1): W9.
Rodriguez-Zas, S. L., M. R. Band, R. E. Everts, B. R. Southey, Z. L. Liu, and H. A. Lewin. 2003. Analysis of gene expression patterns in the cattle digestive system. Journal Animal Science, 81(Suppl. 1): 628.
IOWA
Reecy, J.M., and Nettleton, D. (2002) Statistical Analysis of Gene Expression Data from Hypertrophying and Normal Muscle Tissue. International Society of Animal Genetics. Goettigen, Germany.
Reecy, J.M., Potts, J., and Smith, T.P.L. (2002) Beyond myostatin; the search for interacting alleles. PAG X proceedings W61.
Carson, J.A., D. Nettleton, and J.M. Reecy. 2001. Differential gene expression in the rat soleus muscle during early work overload-induced hypertrophy. The FASEB Journal Express Article 10.1096/fj.01-0544fje Published online December 14, 2001.
Stricker, C., M. Schelling, F. Du, I. Hoeschelle, S. A. Fernandez and R. L. Fernando. 2002. A comparison of efficient genotype samplers for complex pedigrees and multiple linked loci. 7th World Congress Genet. Appl. Livest. Prod. CD-ROM Communication N o 21-12.
Fernando, R. L., J. C. M. Dekkers and M. Soller. 2002. Controlling the proportion of false positives (PFP) in a multiple test genome scan for marker QTL linkage. 7th World Congress Genet. Appl. Livest. Prod. CD-ROM Communication N o 20-01.
KENTUCKY
Fan, M. Z., J. C. Matthews, D. G. Burrin, and D. Lackeyram. 2003. EAAC1 is the Major High-Affinity L-Glutamate Transporter and Expression is Upregulated During Differentiation of Neonatal Porcine Enterocytes. FASEB Journal 17(5):A305.
Gissendanner, S. J., N. M. P. Etienne, and J. C. Matthews. 2003. Differential Expression of EAAC1 and GLT-1 Glutamate Transporters by Bovine Epithelial Tissues is not Altered by Physiological Development. FASEB Journal 17(5):A305.
Gissendanner, S. J., N. M. P. Etienne, K. R. McLeod, and J. C. Matthews. 2003. The Pattern of EAAC1 and GLT-1 Glutamate Transporter Expression by Skeletal Muscle and Adipose Tissues of Fattening Cattle Differs from that of Glutamine Synthetase. FASEB Journal 17(5):A738.
Gissendanner, S. J., N. M. P. Etienne, K. R. McLeod, and J. C. Matthews. 2003. The Patterns of EAAC1 and GLT-1 Glutamate Transporters and Glutamine Synthetase Expression by Skeletal Muscle and Adipose Tissues Change as Cattle Grow and Fatten. Oral presentation, March 2003, MANRRS 18th Annual National Career Fair and Training Conference, Atlanta, GA.
Howell, J. A., A. D. Matthews, T. C. Welbourne, and J. C. Matthews. 2003. Content of Ileal EAAC1 and Hepatic GLT-1 High-Affinity Glutamate Transporters is Increased in Growing Versus Non-Growing Lambs, Paralleling Increased Tissue Concentrations of D- and L-Glutamate and Plasma Glutamine and Alanine. Journal of Animal Science 81:1030-1039.
Krehbeil, C. R. and J. C. Matthews. Absorption of Amino Acids and Peptides. 2003. In: J. P. F. DMello (Ed.) Amino Acids in Animal Nutrition, 2nd edition. Chapter 3, pp. 41-70. CAB International, Wallingford.
Novak, D. A. and J. C. Matthews. 2003. Glutamate transport by Rcho-1 cells derived from rat placenta. Pediatric Research 53(5):1-5.
MICHIGAN
Aho, A.D., A.M. McNulty, and P. M. Coussens. 2003. Enhanced expression of IL-1a and TRAF1 in ileal tissues of cattle infected with Mycobacterium paratuberculosis.
Infection and Immunity, 71(11), 6479-6486.
Burton, J., P. Coussens, M. VandeHaar, M. Allen, G. Smith, and J. Ireland. 2004. Functional Genomics and the Dairy Cow: From Genes to the Farm. Michigan Dairy Review. (paper copy in press for Jan 2004 issue; also see http://www.msu.edu/user/mdr/).
Burton, J.L., and R.J. Erskine. 2003. Mastitis and immunity: some new ideas for an old disease. Veterinary Clinics of North America: Food Animal Practice 19:1-45.
Rosa, G.J.M., R.J. Tempelman, S. Suchyta, S.A. Madsen, J.L. Burton, and P.M. Coussens, 2003. Normalization, replication, and significance tests in cDNA microarray experimentation. J. Dairy Sci. 86 (Suppl. 1):159 (abstr. 630).
Burton, J.L. 2003. Functional Genomics of the Stress-Immune Axis. International Agriculture Biotechnology Short Course. Michigan State University. May, July, and August, 2003.
Burton, J.L. 2003. Animal model: Neutrophil adhesion molecules and apoptosis in inflammation and parturition. Biomarkers of Pre-term Delivery Workshop, Michigan State University. March 21, 2003.
Chang, L-C., S.A. Madsen, P.S.D. Weber, T. Toelboell, and J.L. Burton. 2003. Glucocorticoid-Induced Down Regulation of Fas mRNA Abundance in Bovine Neutrophils. International Symposium on Animal Functional Genomics. May 9-11, 2003. Kellogg Center, Michigan State University. (poster presentation).
Coussens, P.M. 2003. A model for immune responses to M. avium subspecies paratuberculosis in cattle. Infection and Immunity (Submitted for Publication)
Coussens, P.M., A. Jeffers, and C. Colvin, 2003. Rapid and transient activation of gene expression in peripheral blood mononuclear cells from Johnes Disease positive cows exposed to Mycobacterium paratuberculosis in vitro. Microbial Pathogenesis (In press).
Coussens, P.M. C.J. Colvin, G.J.M. Rosa, J.Perez Laspiur, and M.D. Elftman. 2003. Evidence for a novel gene expression program in peripheral blood mononuclear cells from M. paratuberculosis infected cattle. Infection and Immunity 71(11), 6487-6498.
Coussens, P.M., N. Verman, M.A. Coussens, and A.M. McNulty. 2003. Cytokine gene expression in peripheral blood mononuclear cells and tissues of cattle infected with Mycobacterium avium subspecies paratuberculosis: Evidence for an inherent pro-inflammatory gene expression pattern. Infection and Immunity (Submitted for Publication).
Elftman M., P.M. Coussens, and J.J. Ireland. 2003. Effects of estrogen on bovine macrophage gene expression and function. International Symposium on Animal Functional Genomics, Michigan State University, May 9-11, 2003.
Ireland, J.J., and D.S. Burns. 2003. Numbers of antral follicles that grow during different follicular waves in individual cattle are highly repeatable. Abstract presented to 36th Annual Meeting of the Society for Study of Reproduction, July 19-22, Cincinnati, OH.
Jimenez-Krassel, F., and J.J. Ireland. 2003. The negative action of inhibin on estradiol production by bovine granulosa cells is calcium dependent. Abstract presented to 36th Annual Meeting of the Society for Study of Reproduction, July 19-22, Cincinnati, OH.
Jimenez-Krassel, F., Winn, M.E., Burns, D., Ireland, J.L.H., and Ireland, J.J. 2003. Evidence for a negative intrafollicular role for inhibin in regulation of estradiol production by granulosa cells. Endocrinology 144:1876-1886.
Kizilkaya, K., P. Carnier, A. Albera, G. Bittante, and R.J. Tempelman. 2003. Cumulative t-link threshold models for the genetic analysis of calving ease scores. Genetics, Selection, Evolution 35:489-512.
Kobayashi, Y., Huang, R., Yao, J., Jimenez-Krassel, F., Ireland, J.J., Coussens, P.M., and Smith, G.W. 2003. Differential expression of cocaine and amphetamine regulated transcript (CART) mRNA within the bovine ovary. Abstract presented to 36th Annual Meeting of the Society for Study of Reproduction, July 19-22, Cincinnati, OH.
Madsen, S.A., L-C. Chang, M-C. Hickey, G.J. M. Rosa, P.M. Coussens, and J.L. Burton. 2003. Microarray analysis of gene expression in blood neutrophils of parturient cows. Physiological Genomics (in press; also see http://physiolgenomics.physiology.org/papbyrecent.shtml).
Madsen, S.A., L-C. Chang, M-C. Hickey, P.M. Coussens, G.J.M. Rosa, and J.L. Burton. 2003. Gene expression profiling and apoptosis phenotyping indicate that parturient steroids promote survival in bovine blood neutrophils. International Symposium on Animal Functional Genomics. May 9-11, 2003. Kellogg Center, Michigan State University. (poster presentation).
Pagan, M., Davis, M.E., Stick, D.A., Simmen, R.C.M., Raney, N.E., Tempelman, R.J., and C.W. Ernst. 2003. Evaluation of serum insulin-like growth factor binding proteins (IGFBP) in Angus cattle divergently selected for serum IGF-I concentration. Domestic Animal Endocrinology (in press).
Suchyta, S.P., S. Sipkovsky, M. Coussens, R. Kruska, A. Jeffers, A. McNulty, R.J. Tempelman, R.G. Halgren, P.M. Saama, D.E. Bauman, Y.R. Boisclair, J.L. Burton, R.J. Collier, E.J. DePeters, T.A. Ferris, M.C. Lucy, M.A. McGuire, J.F. Medrano, T.R. Overton, T.P. Smith, G.W. Smith, T.S. Sonstegard, J.N. Spain, D.E. Spiers, J. Yao, and P.M. Coussens. 2003. Development and testing of a high-density cDNA microarray resource for cattle. Physiological Genomics (in press; also see http://physiolgenomics.physiology.org/cgi/reprint/00094.2003v1).
Toelboell, T., P.S.D. Weber, L-C. Chang, K. Buckham, and J.L. Burton. 2003. Dexamethasone-Induced Down Regulation of CD62L Gene Expression in Neutrophils is Mediated by the Glucocorticoid Receptor (GR). International Symposium on Animal Functional Genomics. May 9-11, 2003. Kellogg Center, Michigan State University. (poster presentation).
Tooker, B.C., and P.M. Coussens. 2003. Phagocytosis of M. paratuberculosis fails to activate expression of NADH Dehydrogenase and Nucleolin-Related Protein in bovine macrophagesImmunology Letters (Accepted for Publication).
Weber, P.S.D., T. Toelboell, J. Durrett-Tirrill, P.M. Saama, and J.L. Burton. 2003. Bone marrow neutrophils contribute minimally to the CD62L mRNA and protein expression profiles of blood neutrophils in glucocorticoid-challenged cattle. International Symposium on Animal Functional Genomics. May 9-11, 2003. Kellogg Center, Michigan State University. (poster presentation).
Yao, J., R. Huang, Y. Kobayashi, A. Bettegowda, P.M. Coussens, J.J. Ireland, and G.W. Smith. 2004. Identification and characterization of expression of JY-1: A novel oocyte-specific gene in cattle. Abstract presented to 36th Annual Meeting of the Society for Study of Reproduction, July 19-22, Cincinnati, OH.
Yao J, Ren X, Ireland JJ, Coussens PM, GW Smith. 2004. Generation of a bovine oocyte cDNA library: A valuable resource for identification of key oocyte-specific genes. Plant & Animal Genomes XII Conference, Town & Country Convention Center, San Diego, CA, January 10-14, 2004.
MINNESOTA
Chrystal, M.A. (2003) Marker assisted selection in dairy cattle using a mixed model approach. Ph.D. Thesis (Thesis advisor: Y. Da), Department of Animal Science, University of Minnesota, September 20, 2003.
Garbe, J. R. and Y. Da. (2003) Genealogy graphing for large complex populations: the example of European royal genealogy data. Journal of American Human Genetics, Supplement to Vol. 73, p.605, The 53rd Annual Meeting of The American Society of Human Genetics.
London, N. R. and Y. Da. (2003) Optimum marker spacing for QTL detection. Journal of American Human Genetics, Supplement to Vol. 73, p.615, The 53rd Annual Meeting of The American Society of Human Genetics.
London, N.R, J.R. Garbe, S.M. Schmutz, M.S. Abrahamsen, and Y. Da. (2003) Linkage analysis for mapping genes of sex-influenced traits. Mammalian Genome 14:261-267.
Patterson, E.E., J.R. Mickelson, Y. Da, M.C. Roberts, A. McVey, D. OBrien, G. Johnson, and P.J. Armstrong.(2003) Clinical characteristics and inheritance of idiopathic epilepsy in Vizslas. Journal of Veterinary Internal medicine. 17: 319-325.
Reed, K. M., L. D. Chaves, J. R. Garbe, Y. Da, and D. E. Harry. (2003) Allelic variation and genetic linkage of avian microsatellites in a new turkey population for genetic mapping. Cytogenetics and Genome Research (In press)
Wansheng Liu, Craig W. Beattie, F. Abel Ponce de Lesn. 2003. Bovine Y chromosome microsatellite polymorphisms. Cytogenet. Genome Res. (in press)
Wansheng Liu & F. Abel Ponce de Lesn. 2003. Development of a BAC-based physical map of the euchromatic region of the bovine Y-chromosome. Conference Abstract, PAG-XI. P586.
Wan-Sheng Liu, Craig W. Beattie, Noelle E. Cockett, F. Abel Ponce de Lesn. 2004. Comparative Analysis of 38 Bovine Y-Chromosome Microsatellites in Cattle, Sheep and Goat. Conference Abstract, PAG-XII. Submitted.
Xu, J. and Y. Da. (2003) Genetic sampling and chiasm interference affect QTL mapping accuracy. Journal of American Human Genetics, Supplement to Vol. 73, p.617, The 53rd Annual Meeting of The American Society of Human Genetics.
OHIO
Chung, H., S. Chen, D. Yoon, I. Cheong, S. Lee, M. Davis, and C. Hines. 2003. Detection of SNPs on the ovine skeletal muscle specific calpain gene using PCR-SSCP analysis. J. Anim. Sci. 81 (Suppl. 1):252.
Davis, M.E., S.L. Boyles, S.J. Moeller, and R.C.M. Simmen. 2003. Genetic parameter estimates for serum insulin-like growth factor I concentration and ultrasound measurements of backfat thickness and longissimus muscle area in Angus beef cattle. J. Anim. Sci. 81:2164-2170.
Ge, W., M.E. Davis, H.C. Hines, K.M. Irvin, and R.C.M. Simmen. 2003. Association of single nucleotide polymorphisms in the growth hormone and growth hormone receptor genes with blood serum insulin-like growth factor I concentration and growth traits in Angus cattle. J. Anim. Sci. 81:641-648.
Yilmaz, A., M.E. Davis, and R.C.M. Simmen. 2003. Estimation of (co)variance components for reproductive traits in Angus beef cattle divergently selected for blood serum IGF-I concentration. J. Anim. Sci. (submitted).
Yilmaz, A., M.E. Davis, H.C. Hines, and R.C.M. Simmen. 2003. Age at puberty in heifers divergently selected for blood serum IGF-I concentration. J. Anim. Sci. (submitted).
Yilmaz, A., M.E. Davis, and R.C.M. Simmen. 2003. Divergent selection for blood serum insulin-like growth factor I concentration does not change age of Angus heifers at puberty. J. Anim. Sci. 81 (Suppl. 1):255.
Yilmaz, A., M.E. Davis, R.C.M. Simmen, and M. Yamaguchi. 2003. Densitometric analysis of myofibrillar proteins in muscle samples from Angus bulls with high or low blood serum IGF-I concentration. J. Anim. Sci. 81 (Suppl. 1):314.
Zhao, Q., M.E. Davis, and H.C. Hines. 2003. Associations of polymorphisms in the Pit-1 gene with growth and carcass traits in Angus beef cattle. J. Anim. Sci. (submitted).
Yilmaz, A., M.E. Davis, R.C.M. Simmen, and H.C. Hines. 2003. Estimation of correlations of reproductive traits with blood serum IGF-I concentration in Angus beef cattle. J. Anim. Sci. 81 (Suppl. 1):315.
Zhao, Q., M.E. Davis, and H.C. Hines. 2002. Polymorphisms in the bovine Pit-1 gene and their associations with growth and carcass traits in beef cattle. Bos taurus Pit-1 gene, exon 3. GenBank Accession No. AY183915.
Zhao, Q., M.E. Davis, and H.C. Hines. 2002. Polymorphisms in the bovine Pit-1 gene and their associations with growth and carcass traits in beef cattle. Bos taurus Pit-1 gene, exon 4 and partial cds, bases 1 to 1353. GenBank Accession No. AY183916.
Zhao, Q., M.E. Davis, and H.C. Hines. 2002. Polymorphisms in the bovine Pit-1 gene and their associations with growth and carcass traits in beef cattle. Bos taurus Pit-1 gene, exon 4 and partial cds, bases 1 to 885. GenBank Accession No. AY183917.
PENNSYLVANIA
Vallejo, R.L., Y.L. Li, G.W. Rogers, and M.S. Ashwell. 2003. Genetic diversity and background linkage disequilibrium in the North American Holstein cattle population. J. Dairy Sci., Accepted.
Vallejo, R.L. 2003. Power to detect loci linked to common diseases of dairy cattle using identical-by-descent based methods of half-sib pair linkage analysis. J. Anim. Sci. 81:160 (Suppl. 1).
USDA-ARS-BARC
Koltes, J., Berger, P.J., Dekkers, J.C., Healey, M.H., Ashwell, M.S., Shanks, R.S., Schlesser, H., Lewin, H.A. Evidence for major quantitative trait loci affecting perinatal survival in two elite Holstein sire families. Proceedings of the John M. Airy Beef Cattle Genetics Symposium. 2003. p. 131.
Berger, P.J., Koltes, J., Healey, M.H., Ashwell, M.S., Shanks, R.S., Schlesser, H., Lewin, H.A. Putative quantitative trait loci affecting perinatal survial in eleven Holstein families. Journal of Dairy Science. 2003. v. 86. p. 161.
USDA-ARS-NADC
Neill, J.D., and J.F. Ridpath. 2003. Gene expression changes in BVDV2-infected MDBK cells. Biologicals 31:97-102.
Neill, J.D., and J.F. Ridpath. 2003. Gene expression changes in MDBK cells infected with genotype 2 bovine viral diarrhea virus. Vet. Microbiol. 96:301-312.
Neill, J.D., and J.F. Ridpath. 2003. Remodeling of cellular functions following infection with bovine viral diarrhea virus type 2 as determined using serial analysis of gene expression. International Symposium on Animal Functional Genomics, Michigan State University, East Lansing, MI.
Neill, J.D., and J.F. Ricpath. 2003. Serial analysis of gene expression in bovine viral diarrhea virus 2 infected cells provides evidence for inhibition of cap-dependent translation initiation. American Society for Virology , Davis CA.
VERMONT
Wellnitz, O. and D.E. Kerr. 2003. Establishment of a bovine cell-culture system to study the genomic response of mammary epithelial cells to infection with Staphylococcus aureus. Journal of Dairy Science 86 (Suppl. 1):92.