Analysis of genomic sequences from peanut (Arachis hypogaea)

Peanut is an important legume crop across the world. However, in contrast to most legume crops, groundnut lacks taxonomic proximity to any major model genome. A relatively large number of genomic sequences were generated from groundnut as part of a microsatellite marker development project. In the c...

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Autores principales:	B,Jayashree, Ferguson,Morag, Ilut,Dan, Doyle,Jeff, Crouch,Jonathan H
Lenguaje:	English
Publicado:	Pontificia Universidad Católica de Valparaíso 2005
Materias:	Arachis hypogaea codon usage gene-based markers peanut SSR markers
Acceso en línea:	http://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0717-34582005000300002
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spelling	oai:scielo:S0717-345820050003000022006-01-26Analysis of genomic sequences from peanut (Arachis hypogaea)B,JayashreeFerguson,MoragIlut,DanDoyle,JeffCrouch,Jonathan H Arachis hypogaea codon usage gene-based markers peanut SSR markers Peanut is an important legume crop across the world. However, in contrast to most legume crops, groundnut lacks taxonomic proximity to any major model genome. A relatively large number of genomic sequences were generated from groundnut as part of a microsatellite marker development project. In the current study, a total of 1312 sequences were analyzed of which 448 contained microsatellite motifs. All sequences (GenBank Accessions: BZ999351-CC000573) were analyzed after clustering for possible similarity with publicly available sequences from Arabidopsis, Lotus, soybean and Medicago. At least 39% of the sequences analyzed had significant BLAST similarities with sequences from the four databases searched, of which nearly half (47%) found significant similarity with Lotus japonicus sequences. Over one quarter (26.7%) of sequences found similarity with Arabidopsis thaliana, while the remainder aligned with publicly available sequences from the legumes soybean and Medicago truncatula. At least 17% of microsatellite containing sequences could be assigned an identity. The codon usage pattern for Arachis hypogaea most closely resembles that of L. japonicus reflecting the similarly high sequence similarity observed in BLAST searches at the protein level. The implications of these findings for the taxonomy, and comparative genomics of groundnut and its legume family relatives are discussedinfo:eu-repo/semantics/openAccessPontificia Universidad Católica de ValparaísoElectronic Journal of Biotechnology v.8 n.3 20052005-12-01text/htmlhttp://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0717-34582005000300002en
institution	Scielo Chile
collection	Scielo Chile
language	English
topic	Arachis hypogaea codon usage gene-based markers peanut SSR markers
spellingShingle	Arachis hypogaea codon usage gene-based markers peanut SSR markers B,Jayashree Ferguson,Morag Ilut,Dan Doyle,Jeff Crouch,Jonathan H Analysis of genomic sequences from peanut (Arachis hypogaea)
description	Peanut is an important legume crop across the world. However, in contrast to most legume crops, groundnut lacks taxonomic proximity to any major model genome. A relatively large number of genomic sequences were generated from groundnut as part of a microsatellite marker development project. In the current study, a total of 1312 sequences were analyzed of which 448 contained microsatellite motifs. All sequences (GenBank Accessions: BZ999351-CC000573) were analyzed after clustering for possible similarity with publicly available sequences from Arabidopsis, Lotus, soybean and Medicago. At least 39% of the sequences analyzed had significant BLAST similarities with sequences from the four databases searched, of which nearly half (47%) found significant similarity with Lotus japonicus sequences. Over one quarter (26.7%) of sequences found similarity with Arabidopsis thaliana, while the remainder aligned with publicly available sequences from the legumes soybean and Medicago truncatula. At least 17% of microsatellite containing sequences could be assigned an identity. The codon usage pattern for Arachis hypogaea most closely resembles that of L. japonicus reflecting the similarly high sequence similarity observed in BLAST searches at the protein level. The implications of these findings for the taxonomy, and comparative genomics of groundnut and its legume family relatives are discussed
author	B,Jayashree Ferguson,Morag Ilut,Dan Doyle,Jeff Crouch,Jonathan H
author_facet	B,Jayashree Ferguson,Morag Ilut,Dan Doyle,Jeff Crouch,Jonathan H
author_sort	B,Jayashree
title	Analysis of genomic sequences from peanut (Arachis hypogaea)
title_short	Analysis of genomic sequences from peanut (Arachis hypogaea)
title_full	Analysis of genomic sequences from peanut (Arachis hypogaea)
title_fullStr	Analysis of genomic sequences from peanut (Arachis hypogaea)
title_full_unstemmed	Analysis of genomic sequences from peanut (Arachis hypogaea)
title_sort	analysis of genomic sequences from peanut (arachis hypogaea)
publisher	Pontificia Universidad Católica de Valparaíso
publishDate	2005
url	http://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0717-34582005000300002
work_keys_str_mv	AT bjayashree analysisofgenomicsequencesfrompeanutarachishypogaea AT fergusonmorag analysisofgenomicsequencesfrompeanutarachishypogaea AT ilutdan analysisofgenomicsequencesfrompeanutarachishypogaea AT doylejeff analysisofgenomicsequencesfrompeanutarachishypogaea AT crouchjonathanh analysisofgenomicsequencesfrompeanutarachishypogaea
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Analysis of genomic sequences from peanut (Arachis hypogaea)

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