Genome-wide scan for commons SNPs affecting bovine leukemia virus infection level in dairy cattle

被引:24
作者
Carignano, Hugo A. [1 ]
Roldan, Dana L. [1 ]
Beribe, Maria J. [2 ]
Raschia, Maria A. [1 ]
Amadio, Ariel [3 ,4 ]
Nani, Juan P. [3 ]
Gutierrez, Geronimo
Alvarez, Irene [4 ,5 ]
Trono, Karina [5 ]
Poli, Mario A. [1 ]
Miretti, Marcos M. [4 ,6 ]
机构
[1] Inst Genet, INTA, CICVyA, B1686, Hurlingham, Argentina
[2] INTA, Estn Expt Agr Pergamino, B2700, Pergamino, Argentina
[3] INTA, Estn Expt Agr Rafaela, S2300, Rafaela, Argentina
[4] Consejo Nacl Invest Cient & Tecn, C1033AAJ, Buenos Aires, DF, Argentina
[5] Inst Virol, INTA, CICVyA, B686, Hurlingham, Argentina
[6] Univ Nacl Misiones, GIGA, IBS, N3300, Posadas, Argentina
关键词
Bovine leukemia virus; Level of infection; Whole genome association study; TRIM FAMILY PROTEINS; VIRAL DIARRHEA VIRUS; LINKAGE-DISEQUILIBRIUM; PROVIRAL LOAD; PERSISTENT LYMPHOCYTOSIS; SUBCLINICAL PROGRESSION; MAJOR DETERMINANTS; LEUKOSIS INCIDENCE; NEOSPORA-CANINUM; HOLSTEIN CATTLE;
D O I
10.1186/s12864-018-4523-2
中图分类号
Q81 [生物工程学(生物技术)]; Q93 [微生物学];
学科分类号
071005 ; 0836 ; 090102 ; 100705 ;
摘要
Background: Bovine leukemia virus (BLV) infection is omnipresent in dairy herds causing direct economic losses due to trade restrictions and lymphosarcoma-related deaths. Milk production drops and increase in the culling rate are also relevant and usually neglected. The BLV provirus persists throughout a lifetime and an inter-individual variation is observed in the level of infection (LI) in vivo. High LI is strongly correlated with disease progression and BLV transmission among herd mates. In a context of high prevalence, classical control strategies are economically prohibitive. Alternatively, host genomics studies aiming to dissect loci associated with LI are potentially useful tools for genetic selection programs tending to abrogate the viral spreading. The LI was measured through the proviral load (PVL) set-point and white blood cells (WBC) counts. The goals of this work were to gain insight into the contribution of SNPs (bovine 50KSNP panel) on LI variability and to identify genomics regions underlying this trait. Results: We quantified anti-p24 response and total leukocytes count in peripheral blood from 1800 cows and used these to select 800 individuals with extreme phenotypes in WBCs and PVL. Two case-control genomic association studies using linear mixed models (LMMs) considering population stratification were performed. The proportion of the variance captured by all QC-passed SNPs represented 0.63 (SE +/- 0.14) of the phenotypic variance for PVL and 0. 56 (SE +/- 0.15) for WBCs. Overall, significant associations (Bonferroni's corrected -log(10)p > 5.94) were shared for both phenotypes by 24 SNPs within the Bovine MHC. Founder haplotypes were used to measure the linkage disequilibrium (LD) extent (r(2) = 0.22 +/- 0.27 at inter-SNP distance of 25-50 kb). The SNPs and LD blocks indicated genes potentially associated with LI in infected cows: i.e. relevant immune response related genes (DQA1, DRB3, BOLA-A, LTA, LTB, TNF, IER3, GRP111, CRISP1), several genes involved in cell cytoskeletal reorganization (CD2AP, PKHD1, FLOT1, TUBB5) and modelling of the extracellular matrix (TRAM2, TNXB). Host transcription factors (TFs) were also highlighted (TFAP2D; ABT1, GCM1, PRRC2A). Conclusions: Data obtained represent a step forward to understand the biology of BLV-bovine interaction, and provide genetic information potentially applicable to selective breeding programs.
引用
收藏
页数:15
相关论文
共 50 条
[41]   Genome-wide association for milk production and female fertility traits in Canadian dairy Holstein cattle [J].
Shadi Nayeri ;
Mehdi Sargolzaei ;
Mohammed K. Abo-Ismail ;
Natalie May ;
Stephen P. Miller ;
Flavio Schenkel ;
Stephen S. Moore ;
Paul Stothard .
BMC Genetics, 17
[42]   Comparison of the copy numbers of bovine leukemia virus in the lymph nodes of cattle with enzootic bovine leukosis and cattle with latent infection [J].
Yoshiko Somura ;
Emi Sugiyama ;
Hiroshi Fujikawa ;
Kenji Murakami .
Archives of Virology, 2014, 159 :2693-2697
[43]   The recent prevalence of bovine leukemia virus (BLV) infection among Japanese cattle [J].
Murakami, Kenji ;
Kobayashi, Sota ;
Konishi, Misako ;
Kameyama, Ken-ichiro ;
Yamamoto, Takehisa ;
Tsutsui, Toshiyuki .
VETERINARY MICROBIOLOGY, 2011, 148 (01) :84-88
[44]   PROTECTION AGAINST BOVINE LEUKEMIA-VIRUS INFECTION IN 2 BREEDS OF CATTLE [J].
KUKAINE, RA ;
NAGAYEVA, LI ;
CHAPENKO, SV ;
ILJINSKAYA, TN ;
BRATSSLAVSKAYA, OI ;
VITOLIN, LA ;
YANCHEV, IK ;
BOZHKOV, S ;
ALEXANDROV, II ;
STEFANOVA, RN ;
FLOROVA, IS ;
PARVOULOV, B ;
MATEEV, MI ;
SOTIROV, NZ .
COMPARATIVE IMMUNOLOGY MICROBIOLOGY AND INFECTIOUS DISEASES, 1993, 16 (01) :63-71
[45]   Analyzes of genome-wide association follow-up study for calving traits in dairy cattle [J].
Hoglund, Johanna K. ;
Guldbrandtsen, Bernt ;
Lund, Mogens S. ;
Sahana, Goutam .
BMC GENETICS, 2012, 13
[46]   Nationwide Survey of Bovine Leukemia Virus Infection among Dairy and Beef Breeding Cattle in Japan from 2009-2011 [J].
Murakami, Kenji ;
Kobayashi, Sota ;
Konishi, Misako ;
Kameyama, Ken-ichiro ;
Tsutsui, Toshiyuki .
JOURNAL OF VETERINARY MEDICAL SCIENCE, 2013, 75 (08) :1123-1126
[47]   Genome-wide association study of endo-parasite phenotypes using imputed whole-genome sequence data in dairy and beef cattle [J].
Twomey, Alan J. ;
Berry, Donagh P. ;
Evans, Ross D. ;
Doherty, Michael L. ;
Graham, David A. ;
Purfield, Deirdre C. .
GENETICS SELECTION EVOLUTION, 2019, 51 (1)
[48]   Molecular characterization of bovine leukemia virus reveals existence of genotype 4 in Chinese dairy cattle [J].
Yang, Yi ;
Chen, Lina ;
Dong, Maoli ;
Huang, Wenjiang ;
Hao, Xiaoli ;
Peng, Yalan ;
Gong, Zaicheng ;
Qin, Aijian ;
Shang, Shaobin ;
Yang, Zhangping .
VIROLOGY JOURNAL, 2019, 16 (01)
[49]   Molecular characterization of bovine leukemia virus reveals existence of genotype 4 in Chinese dairy cattle [J].
Yi Yang ;
Lina Chen ;
Maoli Dong ;
Wenjiang Huang ;
Xiaoli Hao ;
Yalan Peng ;
Zaicheng Gong ;
Aijian Qin ;
Shaobin Shang ;
Zhangping Yang .
Virology Journal, 16
[50]   The Prevalence and Molecular Characterization of Bovine Leukemia Virus among Dairy Cattle in Henan Province, China [J].
Zhao, Yuxi ;
Zhu, Xiaojie ;
Zhang, Zhen ;
Chen, Jianguo ;
Chen, Yingyu ;
Hu, Changmin ;
Chen, Xi ;
Robertson, Ian D. ;
Guo, Aizhen .
VIRUSES-BASEL, 2024, 16 (09)