Genetic and expression analysis of cattle identifies candidate genes in pathways responding to 'Trypanosoma congolense' infection

Noyes, Harry; Brass, Andy; Hall, Laurence; Hanotte, Olivier; Hulme, Helen; McKeever, Declan; Murray, Caitriona; Oh, Sung Jung; Tate, Catriona; Smith, Ken; Tapio, Miika; Wambugu, John; Obara, Isaiah; Williams, Diana J; Agaba, Morris; Kemp, Stephen J; Anderson, Susan; Archibald, Alan L; Bradley, Dan G; Fisher, Paul; Freeman, Abigail; Gibson, John; Gicheru, Michael

doi:10.1073/pnas.1013486108

Author(s)

Noyes, Harry

Brass, Andy

Hall, Laurence

Hanotte, Olivier

Hulme, Helen

McKeever, Declan

Murray, Caitriona

Oh, Sung Jung

Tate, Catriona

Smith, Ken

Tapio, Miika

Wambugu, John

Obara, Isaiah

Williams, Diana J

Agaba, Morris

Kemp, Stephen J

Anderson, Susan

Archibald, Alan L

Bradley, Dan G

Fisher, Paul

Freeman, Abigail

Gibson, John

Gicheru, Michael

Publication Date

2011

Abstract

African bovine trypanosomiasis caused by 'Trypanosoma' sp., is a major constraint on cattle productivity in sub-Saharan Africa. Some African 'Bos taurus' breeds are highly tolerant of infection, but the potentially more productive 'Bos indicus' zebu breeds are much more susceptible. Zebu cattle are well adapted for plowing and haulage, and increasing their tolerance of trypanosomiasis could have a major impact on crop cultivation as well as dairy and beef production. We used three strategies to obtain short lists of candidate genes within QTL that were previously shown to regulate response to infection. We analyzed the transcriptomes of trypanotolerant N'Dama and susceptible Boran cattle after infection with 'Trypanosoma congolense'. We sequenced EST libraries from these two breeds to identify polymorphisms that might underlie previously identified quantitative trait loci (QTL), and we assessed QTL regions and candidate loci for evidence of selective sweeps. The scan of the EST sequences identified a previously undescribed polymorphism in ARHGAP15 in the Bta2 trypanotolerance QTL. The polymorphism affects gene function in vitro and could contribute to the observed differences in expression of the MAPK pathway in vivo. The expression data showed that TLR and MAPK pathways responded to infection, and the former contained TICAM1, which is within a QTL on Bta7. Genetic analyses showed that selective sweeps had occurred at TICAM1 and ARHGAP15 loci in African taurine cattle, making them strong candidates for the genes underlying the QTL. Candidate QTL genes were identified in other QTL by their expression profile and the pathways in which they participate.

Citation

Proceedings of the National Academy of Sciences, 108(22), p. 9304-9309

ISSN

1091-6490

0027-8424

Link

https://hdl.handle.net/1959.11/12723

Language

en

Publisher

National Academy of Sciences

Title

Genetic and expression analysis of cattle identifies candidate genes in pathways responding to 'Trypanosoma congolense' infection

Type of document

Journal Article

Entity Type

Publication

Author(s)	Noyes, Harry Brass, Andy Hall, Laurence Hanotte, Olivier Hulme, Helen McKeever, Declan Murray, Caitriona Oh, Sung Jung Tate, Catriona Smith, Ken Tapio, Miika Wambugu, John Obara, Isaiah Williams, Diana J Agaba, Morris Kemp, Stephen J Anderson, Susan Archibald, Alan L Bradley, Dan G Fisher, Paul Freeman, Abigail Gibson, John Gicheru, Michael
Publication Date	2011
Abstract	African bovine trypanosomiasis caused by 'Trypanosoma' sp., is a major constraint on cattle productivity in sub-Saharan Africa. Some African 'Bos taurus' breeds are highly tolerant of infection, but the potentially more productive 'Bos indicus' zebu breeds are much more susceptible. Zebu cattle are well adapted for plowing and haulage, and increasing their tolerance of trypanosomiasis could have a major impact on crop cultivation as well as dairy and beef production. We used three strategies to obtain short lists of candidate genes within QTL that were previously shown to regulate response to infection. We analyzed the transcriptomes of trypanotolerant N'Dama and susceptible Boran cattle after infection with 'Trypanosoma congolense'. We sequenced EST libraries from these two breeds to identify polymorphisms that might underlie previously identified quantitative trait loci (QTL), and we assessed QTL regions and candidate loci for evidence of selective sweeps. The scan of the EST sequences identified a previously undescribed polymorphism in ARHGAP15 in the Bta2 trypanotolerance QTL. The polymorphism affects gene function in vitro and could contribute to the observed differences in expression of the MAPK pathway in vivo. The expression data showed that TLR and MAPK pathways responded to infection, and the former contained TICAM1, which is within a QTL on Bta7. Genetic analyses showed that selective sweeps had occurred at TICAM1 and ARHGAP15 loci in African taurine cattle, making them strong candidates for the genes underlying the QTL. Candidate QTL genes were identified in other QTL by their expression profile and the pathways in which they participate.
Citation	Proceedings of the National Academy of Sciences, 108(22), p. 9304-9309
ISSN	1091-6490 0027-8424
Link	https://hdl.handle.net/1959.11/12723
Language	en
Publisher	National Academy of Sciences
Title	Genetic and expression analysis of cattle identifies candidate genes in pathways responding to 'Trypanosoma congolense' infection
Type of document	Journal Article
Entity Type	Publication

Genetic and expression analysis of cattle identifies candidate genes in pathways responding to 'Trypanosoma congolense' infection

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