De Novo Genome Sequence Assemblies of Gossypium raimondii and Gossypium turneri

Publication Overview
TitleDe Novo Genome Sequence Assemblies of Gossypium raimondii and Gossypium turneri
AuthorsUdall JA, Long E, Hanson C, Yuan D, Ramaraj T, Conover JL, Gong L, Arick MA, Grover CE, Peterson DG, Wendel JF
TypeJournal Article
Journal NameG3 (Bethesda, Md.)
Year2019
CitationUdall JA, Long E, Hanson C, Yuan D, Ramaraj T, Conover JL, Gong L, Arick MA, Grover CE, Peterson DG, Wendel JF. De Novo Genome Sequence Assemblies of Gossypium raimondii and Gossypium turneri. G3 (Bethesda, Md.). 2019 Aug 28.

Abstract

Cotton is an agriculturally important crop. Because of its importance, a genome sequence of a diploid cotton species (Gossypium raimondii, D-genome) was first assembled using Sanger sequencing data in 2012. Improvements to DNA sequencing technology have improved accuracy and correctness of assembled genome sequences. Here we report a new de novo genome assembly of G. raimondii and its close relative G. turneri The two genomes were assembled to a chromosome level using PacBio long-read technology, HiC, and Bionano optical mapping. This report corrects some minor assembly errors found in the Sanger assembly of G. raimondii We also compare the genome sequences of these two species for gene composition, repetitive element composition, and collinearity. Most of the identified structural rearrangements between these two species are due to intra-chromosomal inversions. More inversions were found in the G. turneri genome sequence than the G. raimondii genome sequence. These findings and updates to the D-genome sequence will improve accuracy and translation of genomics to cotton breeding and genetics.
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Properties
Additional details for this publication include:
Property NameValue
Language Abbreng
Publication TypeJournal Article
eISSN2160-1836
ISSN2160-1836
Journal CountryUnited States
Publication Date2019 Aug 28
Publication ModelPrint-Electronic
PIIg3.400392.2019
Elocation10.1534/g3.119.400392
Journal AbbreviationG3 (Bethesda)
DOI10.1534/g3.119.400392
CopyrightCopyright © 2019, G3: Genes, Genomes, Genetics.
LanguageEnglish
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PMID: PubMedPMID:31462444