Identification of Candidate Genes Related to Stem Development in Brassica napus Using RNA-Seq

Plant stems are involved in supporting the entire plant body, thus having an important effect on the yield of oilseed rape. The current understanding of the mechanism of stem development in oilseed rape is limited. In this study, a detailed comparative analysis of mRNA expression levels in Brassica...

Full description

Saved in:
Bibliographic Details
Published in:Plant molecular biology reporter 2019-08, Vol.37 (4), p.347-364
Main Authors: Yuan, Rong, Zeng, Xinhua, Zhao, Shengbo, Wu, Gang, Yan, Xiaohong
Format: Article
Language:English
Subjects:
Bioinformatics
Biomedical and Life Sciences
Biosynthesis
Brassica
Brassica napus
Cell walls
Cellulose
Comparative analysis
Gene expression
Gene sequencing
Genes
Life Sciences
Lignin
Metabolomics
Oilseeds
Original Paper
Plant Breeding/Biotechnology
Plant Sciences
Proteomics
Rape plants
Rapeseed
Regulatory mechanisms (biology)
Ribonucleic acid
RNA
Transcription
Citations: Items that this one cites
Items that cite this one
Online Access:Get full text
Tags: Add Tag
No Tags, Be the first to tag this record!
cited_by cdi_FETCH-LOGICAL-c319t-cbbb8ecdd5ebb6df9a6d60f2b49b9164366c8ffbe4c741b3d4bf2c616a6315e23
cites cdi_FETCH-LOGICAL-c319t-cbbb8ecdd5ebb6df9a6d60f2b49b9164366c8ffbe4c741b3d4bf2c616a6315e23
container_end_page 364
container_issue 4
container_start_page 347
container_title Plant molecular biology reporter
container_volume 37
creator Yuan, Rong
Zeng, Xinhua
Zhao, Shengbo
Wu, Gang
Yan, Xiaohong
description Plant stems are involved in supporting the entire plant body, thus having an important effect on the yield of oilseed rape. The current understanding of the mechanism of stem development in oilseed rape is limited. In this study, a detailed comparative analysis of mRNA expression levels in Brassica napus between strong- (sample numbers 7110, 7031, 7029, 7095, and 7109) and weak-stemmed (sample numbers 7003, 7088, and 7123) was performed using RNA sequencing. A total of 1531 significantly differentially expressed genes were identified, including genes involved in cellulose and lignin biosynthesis, cell wall-binding proteins, and hormone biosynthesis and response genes. These results provide valuable insights into the molecular basis of stem development at the transcriptional level and will be helpful for revealing the regulatory mechanisms of stem growth in B. napus .
doi_str_mv 10.1007/s11105-019-01158-1
format article
fullrecord <record><control><sourceid>proquest_cross</sourceid><recordid>TN_cdi_proquest_journals_2275700719</recordid><sourceformat>XML</sourceformat><sourcesystem>PC</sourcesystem><sourcerecordid>2275700719</sourcerecordid><originalsourceid>FETCH-LOGICAL-c319t-cbbb8ecdd5ebb6df9a6d60f2b49b9164366c8ffbe4c741b3d4bf2c616a6315e23</originalsourceid><addsrcrecordid>eNp9kE1LAzEQhoMoWKt_wFPA82pmP7KbY61aC0WhtUcJyWZStrTZbbIV_PdGV_DmYRgG3meGeQi5BnYLjJV3AQBYkTAQsaCoEjghIyjKNBEVVKdkxMqsSATP2Tm5CGHLIsSqakTe5wZd39imVn3TOtpaOlXONEb1SGfoMNAl7uJgaN_SVY97-oAfuGu7feRo4-i9VyFEnDrVHQNdh8Zt6PJlkqzwcEnOrNoFvPrtY7J-enybPieL19l8OlkkdQaiT2qtdYW1MQVqzY0VihvObKpzoQXwPOO8rqzVmNdlDjozubZpzYErnkGBaTYmN8PezreHI4Zebtujd_GkTNOyKOO3IGIqHVK1b0PwaGXnm73ynxKY_NYoB40yapQ_GiVEKBugEMNug_5v9T_UF81hdck</addsrcrecordid><sourcetype>Aggregation Database</sourcetype><iscdi>true</iscdi><recordtype>article</recordtype><pqid>2275700719</pqid></control><display><type>article</type><title>Identification of Candidate Genes Related to Stem Development in Brassica napus Using RNA-Seq</title><source>Springer Nature</source><creator>Yuan, Rong ; Zeng, Xinhua ; Zhao, Shengbo ; Wu, Gang ; Yan, Xiaohong</creator><creatorcontrib>Yuan, Rong ; Zeng, Xinhua ; Zhao, Shengbo ; Wu, Gang ; Yan, Xiaohong</creatorcontrib><description>Plant stems are involved in supporting the entire plant body, thus having an important effect on the yield of oilseed rape. The current understanding of the mechanism of stem development in oilseed rape is limited. In this study, a detailed comparative analysis of mRNA expression levels in Brassica napus between strong- (sample numbers 7110, 7031, 7029, 7095, and 7109) and weak-stemmed (sample numbers 7003, 7088, and 7123) was performed using RNA sequencing. A total of 1531 significantly differentially expressed genes were identified, including genes involved in cellulose and lignin biosynthesis, cell wall-binding proteins, and hormone biosynthesis and response genes. These results provide valuable insights into the molecular basis of stem development at the transcriptional level and will be helpful for revealing the regulatory mechanisms of stem growth in B. napus .</description><identifier>ISSN: 0735-9640</identifier><identifier>EISSN: 1572-9818</identifier><identifier>DOI: 10.1007/s11105-019-01158-1</identifier><language>eng</language><publisher>New York: Springer US</publisher><subject>Bioinformatics ; Biomedical and Life Sciences ; Biosynthesis ; Brassica ; Brassica napus ; Cell walls ; Cellulose ; Comparative analysis ; Gene expression ; Gene sequencing ; Genes ; Life Sciences ; Lignin ; Metabolomics ; Oilseeds ; Original Paper ; Plant Breeding/Biotechnology ; Plant Sciences ; Proteomics ; Rape plants ; Rapeseed ; Regulatory mechanisms (biology) ; Ribonucleic acid ; RNA ; Transcription</subject><ispartof>Plant molecular biology reporter, 2019-08, Vol.37 (4), p.347-364</ispartof><rights>Springer Science+Business Media, LLC, part of Springer Nature 2019</rights><rights>Plant Molecular Biology Reporter is a copyright of Springer, (2019). All Rights Reserved.</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c319t-cbbb8ecdd5ebb6df9a6d60f2b49b9164366c8ffbe4c741b3d4bf2c616a6315e23</citedby><cites>FETCH-LOGICAL-c319t-cbbb8ecdd5ebb6df9a6d60f2b49b9164366c8ffbe4c741b3d4bf2c616a6315e23</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><link.rule.ids>314,780,784,27924,27925</link.rule.ids></links><search><creatorcontrib>Yuan, Rong</creatorcontrib><creatorcontrib>Zeng, Xinhua</creatorcontrib><creatorcontrib>Zhao, Shengbo</creatorcontrib><creatorcontrib>Wu, Gang</creatorcontrib><creatorcontrib>Yan, Xiaohong</creatorcontrib><title>Identification of Candidate Genes Related to Stem Development in Brassica napus Using RNA-Seq</title><title>Plant molecular biology reporter</title><addtitle>Plant Mol Biol Rep</addtitle><description>Plant stems are involved in supporting the entire plant body, thus having an important effect on the yield of oilseed rape. The current understanding of the mechanism of stem development in oilseed rape is limited. In this study, a detailed comparative analysis of mRNA expression levels in Brassica napus between strong- (sample numbers 7110, 7031, 7029, 7095, and 7109) and weak-stemmed (sample numbers 7003, 7088, and 7123) was performed using RNA sequencing. A total of 1531 significantly differentially expressed genes were identified, including genes involved in cellulose and lignin biosynthesis, cell wall-binding proteins, and hormone biosynthesis and response genes. These results provide valuable insights into the molecular basis of stem development at the transcriptional level and will be helpful for revealing the regulatory mechanisms of stem growth in B. napus .</description><subject>Bioinformatics</subject><subject>Biomedical and Life Sciences</subject><subject>Biosynthesis</subject><subject>Brassica</subject><subject>Brassica napus</subject><subject>Cell walls</subject><subject>Cellulose</subject><subject>Comparative analysis</subject><subject>Gene expression</subject><subject>Gene sequencing</subject><subject>Genes</subject><subject>Life Sciences</subject><subject>Lignin</subject><subject>Metabolomics</subject><subject>Oilseeds</subject><subject>Original Paper</subject><subject>Plant Breeding/Biotechnology</subject><subject>Plant Sciences</subject><subject>Proteomics</subject><subject>Rape plants</subject><subject>Rapeseed</subject><subject>Regulatory mechanisms (biology)</subject><subject>Ribonucleic acid</subject><subject>RNA</subject><subject>Transcription</subject><issn>0735-9640</issn><issn>1572-9818</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2019</creationdate><recordtype>article</recordtype><recordid>eNp9kE1LAzEQhoMoWKt_wFPA82pmP7KbY61aC0WhtUcJyWZStrTZbbIV_PdGV_DmYRgG3meGeQi5BnYLjJV3AQBYkTAQsaCoEjghIyjKNBEVVKdkxMqsSATP2Tm5CGHLIsSqakTe5wZd39imVn3TOtpaOlXONEb1SGfoMNAl7uJgaN_SVY97-oAfuGu7feRo4-i9VyFEnDrVHQNdh8Zt6PJlkqzwcEnOrNoFvPrtY7J-enybPieL19l8OlkkdQaiT2qtdYW1MQVqzY0VihvObKpzoQXwPOO8rqzVmNdlDjozubZpzYErnkGBaTYmN8PezreHI4Zebtujd_GkTNOyKOO3IGIqHVK1b0PwaGXnm73ynxKY_NYoB40yapQ_GiVEKBugEMNug_5v9T_UF81hdck</recordid><startdate>20190801</startdate><enddate>20190801</enddate><creator>Yuan, Rong</creator><creator>Zeng, Xinhua</creator><creator>Zhao, Shengbo</creator><creator>Wu, Gang</creator><creator>Yan, Xiaohong</creator><general>Springer US</general><general>Springer Nature B.V</general><scope>AAYXX</scope><scope>CITATION</scope><scope>3V.</scope><scope>7QL</scope><scope>7QR</scope><scope>7T7</scope><scope>7TM</scope><scope>7U9</scope><scope>7X2</scope><scope>8FD</scope><scope>8FE</scope><scope>8FH</scope><scope>8FK</scope><scope>AFKRA</scope><scope>ATCPS</scope><scope>AZQEC</scope><scope>BBNVY</scope><scope>BENPR</scope><scope>BHPHI</scope><scope>C1K</scope><scope>CCPQU</scope><scope>DWQXO</scope><scope>FR3</scope><scope>GNUQQ</scope><scope>H94</scope><scope>HCIFZ</scope><scope>LK8</scope><scope>M0K</scope><scope>M7N</scope><scope>M7P</scope><scope>P64</scope><scope>PQEST</scope><scope>PQQKQ</scope><scope>PQUKI</scope><scope>RC3</scope></search><sort><creationdate>20190801</creationdate><title>Identification of Candidate Genes Related to Stem Development in Brassica napus Using RNA-Seq</title><author>Yuan, Rong ; Zeng, Xinhua ; Zhao, Shengbo ; Wu, Gang ; Yan, Xiaohong</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c319t-cbbb8ecdd5ebb6df9a6d60f2b49b9164366c8ffbe4c741b3d4bf2c616a6315e23</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2019</creationdate><topic>Bioinformatics</topic><topic>Biomedical and Life Sciences</topic><topic>Biosynthesis</topic><topic>Brassica</topic><topic>Brassica napus</topic><topic>Cell walls</topic><topic>Cellulose</topic><topic>Comparative analysis</topic><topic>Gene expression</topic><topic>Gene sequencing</topic><topic>Genes</topic><topic>Life Sciences</topic><topic>Lignin</topic><topic>Metabolomics</topic><topic>Oilseeds</topic><topic>Original Paper</topic><topic>Plant Breeding/Biotechnology</topic><topic>Plant Sciences</topic><topic>Proteomics</topic><topic>Rape plants</topic><topic>Rapeseed</topic><topic>Regulatory mechanisms (biology)</topic><topic>Ribonucleic acid</topic><topic>RNA</topic><topic>Transcription</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Yuan, Rong</creatorcontrib><creatorcontrib>Zeng, Xinhua</creatorcontrib><creatorcontrib>Zhao, Shengbo</creatorcontrib><creatorcontrib>Wu, Gang</creatorcontrib><creatorcontrib>Yan, Xiaohong</creatorcontrib><collection>CrossRef</collection><collection>ProQuest Central (Corporate)</collection><collection>Bacteriology Abstracts (Microbiology B)</collection><collection>Chemoreception Abstracts</collection><collection>Industrial and Applied Microbiology Abstracts (Microbiology A)</collection><collection>Nucleic Acids Abstracts</collection><collection>Virology and AIDS Abstracts</collection><collection>Agricultural Science Collection</collection><collection>Technology Research Database</collection><collection>ProQuest SciTech Collection</collection><collection>ProQuest Natural Science Collection</collection><collection>ProQuest Central (Alumni) (purchase pre-March 2016)</collection><collection>ProQuest Central</collection><collection>Agricultural &amp; Environmental Science Collection</collection><collection>ProQuest Central Essentials</collection><collection>Biological Science Collection</collection><collection>AUTh Library subscriptions: ProQuest Central</collection><collection>Natural Science Collection</collection><collection>Environmental Sciences and Pollution Management</collection><collection>ProQuest One Community College</collection><collection>ProQuest Central</collection><collection>Engineering Research Database</collection><collection>ProQuest Central Student</collection><collection>AIDS and Cancer Research Abstracts</collection><collection>SciTech Premium Collection (Proquest) (PQ_SDU_P3)</collection><collection>ProQuest Biological Science Collection</collection><collection>Agriculture Science Database</collection><collection>Algology Mycology and Protozoology Abstracts (Microbiology C)</collection><collection>ProQuest Biological Science Journals</collection><collection>Biotechnology and BioEngineering Abstracts</collection><collection>ProQuest One Academic Eastern Edition (DO NOT USE)</collection><collection>ProQuest One Academic</collection><collection>ProQuest One Academic UKI Edition</collection><collection>Genetics Abstracts</collection><jtitle>Plant molecular biology reporter</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Yuan, Rong</au><au>Zeng, Xinhua</au><au>Zhao, Shengbo</au><au>Wu, Gang</au><au>Yan, Xiaohong</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Identification of Candidate Genes Related to Stem Development in Brassica napus Using RNA-Seq</atitle><jtitle>Plant molecular biology reporter</jtitle><stitle>Plant Mol Biol Rep</stitle><date>2019-08-01</date><risdate>2019</risdate><volume>37</volume><issue>4</issue><spage>347</spage><epage>364</epage><pages>347-364</pages><issn>0735-9640</issn><eissn>1572-9818</eissn><abstract>Plant stems are involved in supporting the entire plant body, thus having an important effect on the yield of oilseed rape. The current understanding of the mechanism of stem development in oilseed rape is limited. In this study, a detailed comparative analysis of mRNA expression levels in Brassica napus between strong- (sample numbers 7110, 7031, 7029, 7095, and 7109) and weak-stemmed (sample numbers 7003, 7088, and 7123) was performed using RNA sequencing. A total of 1531 significantly differentially expressed genes were identified, including genes involved in cellulose and lignin biosynthesis, cell wall-binding proteins, and hormone biosynthesis and response genes. These results provide valuable insights into the molecular basis of stem development at the transcriptional level and will be helpful for revealing the regulatory mechanisms of stem growth in B. napus .</abstract><cop>New York</cop><pub>Springer US</pub><doi>10.1007/s11105-019-01158-1</doi><tpages>18</tpages></addata></record>
fulltext fulltext
identifier ISSN: 0735-9640
ispartof Plant molecular biology reporter, 2019-08, Vol.37 (4), p.347-364
issn 0735-9640
1572-9818
language eng
recordid cdi_proquest_journals_2275700719
source Springer Nature
subjects Bioinformatics
Biomedical and Life Sciences
Biosynthesis
Brassica
Brassica napus
Cell walls
Cellulose
Comparative analysis
Gene expression
Gene sequencing
Genes
Life Sciences
Lignin
Metabolomics
Oilseeds
Original Paper
Plant Breeding/Biotechnology
Plant Sciences
Proteomics
Rape plants
Rapeseed
Regulatory mechanisms (biology)
Ribonucleic acid
RNA
Transcription
title Identification of Candidate Genes Related to Stem Development in Brassica napus Using RNA-Seq
url http://sfxeu10.hosted.exlibrisgroup.com/loughborough?ctx_ver=Z39.88-2004&ctx_enc=info:ofi/enc:UTF-8&ctx_tim=2024-12-25T22%3A45%3A52IST&url_ver=Z39.88-2004&url_ctx_fmt=infofi/fmt:kev:mtx:ctx&rfr_id=info:sid/primo.exlibrisgroup.com:primo3-Article-proquest_cross&rft_val_fmt=info:ofi/fmt:kev:mtx:journal&rft.genre=article&rft.atitle=Identification%20of%20Candidate%20Genes%20Related%20to%20Stem%20Development%20in%20Brassica%20napus%20Using%20RNA-Seq&rft.jtitle=Plant%20molecular%20biology%20reporter&rft.au=Yuan,%20Rong&rft.date=2019-08-01&rft.volume=37&rft.issue=4&rft.spage=347&rft.epage=364&rft.pages=347-364&rft.issn=0735-9640&rft.eissn=1572-9818&rft_id=info:doi/10.1007/s11105-019-01158-1&rft_dat=%3Cproquest_cross%3E2275700719%3C/proquest_cross%3E%3Cgrp_id%3Ecdi_FETCH-LOGICAL-c319t-cbbb8ecdd5ebb6df9a6d60f2b49b9164366c8ffbe4c741b3d4bf2c616a6315e23%3C/grp_id%3E%3Coa%3E%3C/oa%3E%3Curl%3E%3C/url%3E&rft_id=info:oai/&rft_pqid=2275700719&rft_id=info:pmid/&rfr_iscdi=true