Loading content, please wait..
loading..
Logo
Version 3.22
or
Publication Type J
Authors Guo, R., L. Zhao, K. J. Zhang, D. Gao and C. W. Yang
Title Genome of extreme halophyte Puccinellia tenuiflora
Source Bmc Genomics
Author Keywords Genome Halophyte Salinity Puccinellia tenuiflora salt tolerance salinity tolerance proteomic analysis gene sequence identification expression mechanisms prediction physiology
Abstract BackgroundPuccinellia tenuiflora, a forage grass, is considered a model halophyte given its strong tolerance for multiple stress conditions and its close genetic relationship with cereals. This halophyte has enormous values for improving our understanding of salinity tolerance mechanisms. The genetic information of P. tenuiflora also is a potential resource that can be used for improving the salinity tolerance of cereals.ResultsHere, we sequenced and assembled the P. tenuiflora genome (2n=14) through the combined strategy of Illumina, PacBio, and 10x genomic technique. We generated 43.2x PacBio long reads, 123.87x10x genomic reads, and 312.6x Illumina reads. Finally, we assembled 2638 scaffolds with a total size of 1.107 Gb, contig N50 of 117kb, and scaffold N50 of 950kb. We predicted 39,725 protein-coding genes, and identified 692 tRNAs, 68 rRNAs, 702 snRNAs, 1376 microRNAs, and 691Mb transposable elements.ConclusionsWe deposited the genome sequence in NCBI and the Genome Warehouse in National Genomics Data Center. Our work may improve current understanding of plant salinity tolerance, and provides extensive genetic resources necessary for improving the salinity and drought tolerance of cereals.
Author Address [Guo, Rui] Chinese Acad Agr Sci, Inst Environm & Sustainable Dev Agr, Key Lab Dryland Agr, Beijing 100081, Peoples R China. [Zhao, Long; Yang, Chunwu] Northeast Normal Univ, Key Lab Mol Epigenet, MOE, Changchun 130024, Peoples R China. [Zhao, Long] Chinese Acad Sci, Inst Genet & Dev Biol, Beijing 100101, Peoples R China. [Zhang, Kaijian; Gao, Dan] Beijing Novogene Bioinformat Technol Ltd, Beijing 100083, Peoples R China. Yang, CW (reprint author), Northeast Normal Univ, Key Lab Mol Epigenet, MOE, Changchun 130024, Peoples R China. yangcw809@nenu.edu.cn
ISSN 1471-2164
ISBN 1471-2164
29-Character Source Abbreviation BMC Genomics
Publication Date Apr
Year Published 2020
Volume 21
Issue 1
Digital Object Identifier (DOI) 10.1186/s12864-020-6727-5
Unique Article Identifier WOS:000529207700003
Plants associated with this reference

LEGAL NOTICES — This website is protected by Copyright © The University of Sussex, 2012, 2013, 2014, 2015, 2016, 2017, 2018, 2019, 2020, 2021. The eHALOPH database is protected by Database Right and Copyright © The University of Sussex and other contributors, 2006, 2012, 2013, 2014, 2015, 2016, 2017, 2018, 2019, 2020, 2021. This database is based on an earlier work by James Aronson.
THIS WEBSITE AND THIS DATABASE ARE PROVIDED ON AN "AS IS" BASIS, AND YOU USE THEM AND RELY ON THEM AT YOUR OWN RISK.

Contact email: halophytes@sussex.ac.uk
Credits – Tim Flowers, Joaquim Santos, Moritz Jahns, Brian Warburton, Peter Reed