COMPUTATIONAL ANALYSIS OF MOLECULAR SIGNATURES OF SELECTION AT PRODUCTION GENES FOR EGG AND MEAT IN LIVESTOCK AND WILD RELATIVES

Show simple item record

dc.contributor.author Wainaina, E.
dc.contributor.author Lichoti, J.
dc.contributor.author Kariuki, D.
dc.contributor.author Sigei, C.
dc.contributor.author Maina, S.
dc.contributor.author Makanda, M.
dc.contributor.author Oyier, P.
dc.contributor.author Ndiema, .E
dc.contributor.author Ommeh, S.
dc.date.accessioned 2017-04-21T11:01:48Z
dc.date.available 2017-04-21T11:01:48Z
dc.date.issued 2017-04-21
dc.identifier.isbn 9966 923 28
dc.identifier.uri http://journals.jkuat.ac.ke/index.php/jscp/
dc.identifier.uri http://hdl.handle.net/123456789/2954
dc.description.abstract In Kenya, indigenous chicken form the majority of poultry. Their egg and meat production is low compared to commercial chicken. However there is variation among the indigenous chicken caused by evolutionary forces such as Natural Selection. The aim of this study was to model evolution and subsequent detection positive selection on genes for egg and meat production. Genes for egg production were prolactin, vasoactive intestinal peptide (vip) and intestinal peptide receptor (vipr) while genes for meat production were growth hormone (gh), growth hormone receptor (ghr), insulin growth factor 1(igf1) and insulin growth factor 1 receptor (igf1r). This was achieved by data mining of the sequences of these genes from databases followed by performing reciprocal BLASTp and BLOSUM62 substitution matrix using chicken sequence for each gene as the query. Homologues with an expectation value greater than 1e-10 were selected for each gene. Thereafter, Multiple Sequence Alignment was done using MUSCLE which uses an iterative algorithm. The alignments were edited using Seaview. MEGA6 was used to test for heterogeneity in substitution rate and for determining evolutionary model using lowest Akaike Information Criterion. Finally, phylogenetic trees were constructed using Nearest Neighbour Interchange with subtree pruning and regrafting of FastME followed by analysis for signatures of selection using PAML4. This led to inferred phylogenetic trees that modeled evolution of the genes in the different species and identification of positive selection on one amino acid site on igf1r. This is an advanced genetic technology that may be used to improve egg and meat production through artificial selection. en_US
dc.description.sponsorship JKUAT en_US
dc.language.iso en en_US
dc.publisher JKUAT en_US
dc.relation.ispartofseries Scientific Conference Proceedings;No 1 (2015)
dc.subject poultry en_US
dc.subject growth hormone en_US
dc.subject natural selection en_US
dc.subject insulin growth factor1 receptor en_US
dc.subject codon-substitution models en_US
dc.subject prolactin en_US
dc.subject vipr1 en_US
dc.title COMPUTATIONAL ANALYSIS OF MOLECULAR SIGNATURES OF SELECTION AT PRODUCTION GENES FOR EGG AND MEAT IN LIVESTOCK AND WILD RELATIVES en_US
dc.type Article en_US


Files in this item

This item appears in the following Collection(s)

Show simple item record

Search Repository


Browse

My Account