A framework radiation hybrid map of buffalo chromosome 1 ordering scaffolds from buffalo genome sequence assembly

A framework radiation hybrid map of buffalo chromosome 1 ordering scaffolds from buffalo genome sequence assembly

River buffalo chromosome 1 (BBU1) is a sub-metacentric chromosome homologous to bovine chromosomes 1 and 27. In this study, we constructed a new framework radiation hybrid (RH) map from BBU1 using BBURH5000 panel adding nine new genes (ADRB3, ATP2C1, COPB2, CRYGS, P2RY1, SLC5A3, SLC20A2, SST, and ZD...

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Veröffentlicht in:Genetics and molecular research 2015-01, Vol.14 (4), p.13096-13104
Hauptverfasser: Stafuzza, N B, Naressi, B C M, Yang, E, Cai, J J, Amaral-Trusty, M E J
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Sprache:eng
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Animals
Buffaloes - genetics
Cattle
Chromosomes, Mammalian
Genetic Markers
Genome
Genomics - methods
Radiation Hybrid Mapping
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container_end_page 13104
container_issue 4
container_start_page 13096
container_title Genetics and molecular research
container_volume 14
creator Stafuzza, N B
Naressi, B C M
Yang, E
Cai, J J
Amaral-Trusty, M E J
description River buffalo chromosome 1 (BBU1) is a sub-metacentric chromosome homologous to bovine chromosomes 1 and 27. In this study, we constructed a new framework radiation hybrid (RH) map from BBU1 using BBURH5000 panel adding nine new genes (ADRB3, ATP2C1, COPB2, CRYGS, P2RY1, SLC5A3, SLC20A2, SST, and ZDHHC2) and one microsatellite (CSSM043) to the set of markers previously mapped on BBU1. The new framework RH map of BBU1 contained 141 markers (55 genes, 2 ESTs, 10 microsatellites, and 74 SNPs) distributed within one linkage group spanning 2832.62 centirays. Comparison of the RH map to sequences from bovine chromosomes 1 and 27 revealed an inversion close to the telomeric region. In addition, we ordered a set of 34 scaffolds from the buffalo genome assembly UMD_CASPUR_WB_2.0. The RH map could provide a valuable tool to order scaffolds from the buffalo genome sequence, contributing to its annotation.
doi_str_mv 10.4238/2015.October.26.5
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source MEDLINE; Elektronische Zeitschriftenbibliothek - Frei zugängliche E-Journals
subjects Animals
Buffaloes - genetics
Cattle
Chromosomes, Mammalian
Genetic Markers
Genome
Genomics - methods
Radiation Hybrid Mapping
title A framework radiation hybrid map of buffalo chromosome 1 ordering scaffolds from buffalo genome sequence assembly
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