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A genetic map of Xenopus tropicalis.

Abstract：

:We present a genetic map for Xenopus tropicalis, consisting of 2886 Simple Sequence Length Polymorphism (SSLP) markers. Using a bioinformatics-based strategy, we identified unique SSLPs within the X. tropicalis genome. Scaffolds from X. tropicalis genome assembly 2.0 (JGI) were scanned for Simple Sequence Repeats (SSRs); unique SSRs were then tested for amplification and polymorphisms using DNA from inbred Nigerian and Ivory Coast individuals. Thus identified, the SSLPs were genotyped against a mapping cross panel of DNA samples from 190 F2 individuals. Nearly 4000 SSLPs were genotyped, yielding a 2886-marker genetic map consisting of 10 major linkage groups between 73 and 132cM in length, and 4 smaller linkage groups between 7 and 40cM. The total effective size of the map is 1658cM, and the average intermarker distance for each linkage group ranged from 0.27 to 0.75cM. Fluorescence In Situ Hybridization (FISH) was carried out using probes for genes located on mapped scaffolds to assign linkage groups to chromosomes. Comparisons of this map with the X. tropicalis genome Assembly 4.1 (JGI) indicate that the map provides representation of a minimum of 66% of the X. tropicalis genome, incorporating 758 of the approximately 1300 scaffolds over 100,000bp. The genetic map and SSLP marker database constitute an essential resource for genetic and genomic analyses in X. tropicalis.

journal_name

Dev Biol

journal_title

Developmental biology

authors

Wells DE,Gutierrez L,Xu Z,Krylov V,Macha J,Blankenburg KP,Hitchens M,Bellot LJ,Spivey M,Stemple DL,Kowis A,Ye Y,Pasternak S,Owen J,Tran T,Slavikova R,Tumova L,Tlapakova T,Seifertova E,Scherer SE,Sater AK

doi

10.1016/j.ydbio.2011.03.022

subject

Has Abstract

pub_date

2011-06-01 00:00:00

pages

1-8

issue

1

eissn

0012-1606

issn

1095-564X

pii

S0012-1606(11)00194-1

journal_volume

354

pub_type

杂志文章

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