De Novo Assembly of Bitter Gourd Transcriptomes: Gene Expression and Sequence Variations in Gynoecious and Monoecious Lines
Bitter gourd (Momordica charantia L.) is a nutritious vegetable crop of Asian origin, used as a medicinal herb in Indian and Chinese traditional medicine. Molecular breeding in bitter gourd is in its infancy, due to limited molecular resources, particularly on functional markers for traits such as g...
Gespeichert in:
| Veröffentlicht in: | PloS one 2015-06, Vol.10 (6), p.e0128331-e0128331 |
|---|---|
| Hauptverfasser: | , , , , , , , , , |
| Format: | Artikel |
| Sprache: | eng |
| Schlagworte: | |
| Online-Zugang: | Volltext |
| Tags: |
Tag hinzufügen
Keine Tags, Fügen Sie den ersten Tag hinzu!
|
| container_end_page | e0128331 |
|---|---|
| container_issue | 6 |
| container_start_page | e0128331 |
| container_title | PloS one |
| container_volume | 10 |
| creator | Shukla, Anjali Singh, V K Bharadwaj, D R Kumar, Rajesh Rai, Ashutosh Rai, A K Mugasimangalam, Raja Parameswaran, Sriram Singh, Major Naik, P S |
| description | Bitter gourd (Momordica charantia L.) is a nutritious vegetable crop of Asian origin, used as a medicinal herb in Indian and Chinese traditional medicine. Molecular breeding in bitter gourd is in its infancy, due to limited molecular resources, particularly on functional markers for traits such as gynoecy. We performed de novo transcriptome sequencing of bitter gourd using Illumina next-generation sequencer, from root, flower buds, stem and leaf samples of gynoecious line (Gy323) and a monoecious line (DRAR1). A total of 65,540 transcripts for Gy323 and 61,490 for DRAR1 were obtained. Comparisons revealed SNP and SSR variations between these lines and, identification of gene classes. Based on available transcripts we identified 80 WRKY transcription factors, several reported in responses to biotic and abiotic stresses; 56 ARF genes which play a pivotal role in auxin-regulated gene expression and development. The data presented will be useful in both functions studies and breeding programs in bitter gourd. |
| doi_str_mv | 10.1371/journal.pone.0128331 |
| format | Article |
| fullrecord | <record><control><sourceid>gale_plos_</sourceid><recordid>TN_cdi_plos_journals_1686215111</recordid><sourceformat>XML</sourceformat><sourcesystem>PC</sourcesystem><galeid>A416664970</galeid><doaj_id>oai_doaj_org_article_f32d10a59dab4a0bbeb85f0f25f12443</doaj_id><sourcerecordid>A416664970</sourcerecordid><originalsourceid>FETCH-LOGICAL-c692t-a232469b090af93f529a25b39c8b12cbcddd1c192cb55d13a0bc253dff6b75493</originalsourceid><addsrcrecordid>eNqNk11v0zAUhiMEYmPwDxBYQkJw0eKPOKm5QCpjlEqFSWzs1nL80bpK7GKn0yr-PG6bVQ3aBcpF7JPnvMfnjU-WvURwiEiJPiz9OjhRD1fe6SFEeEQIepSdIkbwoMCQPD5an2TPYlxCSMmoKJ5mJ7iAeYkgPs3-fNHgh7_1YByjbqp6A7wBn23b6gAmqYIC10G4KINdtb7R8SOYaKfBxd0q6Bitd0A4Ba7077V2UoMbEaxoUzgC68Bk47yW1q_jjvruD9uZdTo-z54YUUf9onufZb--XlyffxvMLifT8_FsIAuG24HABOcFqyCDwjBiKGYC04owOaoQlpVUSiGJWFpSqhARsJKYEmVMUZU0Z-Qse73XXdU-8s63yFExKjCiCKFETPeE8mLJV8E2Imy4F5bvAj7MuQitlbXmhmCFoKBMiSpPpSpdjaiBBlODcJ6TpPWpq7auGq2kdm0QdU-0_8XZBZ_7W57ntCwZTALvOoHgk62x5Y2NUte1cDp5tzs3Y6ykW_TNP-jD3XXUXKQGrDM-1ZVbUT7OUVEUOSu3WsMHqPQo3ViZLpmxKd5LeN9LSEyr79q5WMfIp1c__5-9vOmzb4_YhRZ1u4i-Xu-uVR_M96AMPsagzcFkBPl2Ru7d4NsZ4d2MpLRXxz_okHQ_FOQv0eYNGQ</addsrcrecordid><sourcetype>Open Website</sourcetype><iscdi>true</iscdi><recordtype>article</recordtype><pqid>1686215111</pqid></control><display><type>article</type><title>De Novo Assembly of Bitter Gourd Transcriptomes: Gene Expression and Sequence Variations in Gynoecious and Monoecious Lines</title><source>MEDLINE</source><source>DOAJ Directory of Open Access Journals</source><source>Elektronische Zeitschriftenbibliothek - Frei zugängliche E-Journals</source><source>PubMed Central</source><source>Free Full-Text Journals in Chemistry</source><source>Public Library of Science (PLoS)</source><creator>Shukla, Anjali ; Singh, V K ; Bharadwaj, D R ; Kumar, Rajesh ; Rai, Ashutosh ; Rai, A K ; Mugasimangalam, Raja ; Parameswaran, Sriram ; Singh, Major ; Naik, P S</creator><creatorcontrib>Shukla, Anjali ; Singh, V K ; Bharadwaj, D R ; Kumar, Rajesh ; Rai, Ashutosh ; Rai, A K ; Mugasimangalam, Raja ; Parameswaran, Sriram ; Singh, Major ; Naik, P S</creatorcontrib><description>Bitter gourd (Momordica charantia L.) is a nutritious vegetable crop of Asian origin, used as a medicinal herb in Indian and Chinese traditional medicine. Molecular breeding in bitter gourd is in its infancy, due to limited molecular resources, particularly on functional markers for traits such as gynoecy. We performed de novo transcriptome sequencing of bitter gourd using Illumina next-generation sequencer, from root, flower buds, stem and leaf samples of gynoecious line (Gy323) and a monoecious line (DRAR1). A total of 65,540 transcripts for Gy323 and 61,490 for DRAR1 were obtained. Comparisons revealed SNP and SSR variations between these lines and, identification of gene classes. Based on available transcripts we identified 80 WRKY transcription factors, several reported in responses to biotic and abiotic stresses; 56 ARF genes which play a pivotal role in auxin-regulated gene expression and development. The data presented will be useful in both functions studies and breeding programs in bitter gourd.</description><identifier>ISSN: 1932-6203</identifier><identifier>EISSN: 1932-6203</identifier><identifier>DOI: 10.1371/journal.pone.0128331</identifier><identifier>PMID: 26047102</identifier><language>eng</language><publisher>United States: Public Library of Science</publisher><subject>Analysis ; Bioinformatics ; Biosynthesis ; Breeding ; Cucurbitaceae ; Deoxyribonucleic acid ; DNA ; Flowers & plants ; Gene expression ; Gene Expression Regulation, Plant ; Genes ; Genes, Plant ; Genetic diversity ; Genetic Variation ; Genomes ; Herbal medicine ; High-Throughput Nucleotide Sequencing ; Medicinal plants ; Medicine, Traditional ; Microsatellite Repeats - genetics ; Molecular chains ; Momordica charantia ; Momordica charantia - genetics ; Plant Proteins - genetics ; Plant Proteins - metabolism ; Polymorphism, Single Nucleotide ; Quality ; Real-Time Polymerase Chain Reaction ; Sequence Analysis, RNA ; Single-nucleotide polymorphism ; Transcription factors ; Transcription Factors - genetics ; Transcription Factors - metabolism ; Transcriptome ; Trends</subject><ispartof>PloS one, 2015-06, Vol.10 (6), p.e0128331-e0128331</ispartof><rights>COPYRIGHT 2015 Public Library of Science</rights><rights>2015 Shukla et al. This is an open access article distributed under the terms of the Creative Commons Attribution License: http://creativecommons.org/licenses/by/4.0/ (the “License”), which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License.</rights><rights>2015 Shukla et al 2015 Shukla et al</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c692t-a232469b090af93f529a25b39c8b12cbcddd1c192cb55d13a0bc253dff6b75493</citedby><cites>FETCH-LOGICAL-c692t-a232469b090af93f529a25b39c8b12cbcddd1c192cb55d13a0bc253dff6b75493</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC4457790/pdf/$$EPDF$$P50$$Gpubmedcentral$$Hfree_for_read</linktopdf><linktohtml>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC4457790/$$EHTML$$P50$$Gpubmedcentral$$Hfree_for_read</linktohtml><link.rule.ids>230,314,723,776,780,860,881,2096,2915,23845,27901,27902,53766,53768,79342,79343</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/26047102$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Shukla, Anjali</creatorcontrib><creatorcontrib>Singh, V K</creatorcontrib><creatorcontrib>Bharadwaj, D R</creatorcontrib><creatorcontrib>Kumar, Rajesh</creatorcontrib><creatorcontrib>Rai, Ashutosh</creatorcontrib><creatorcontrib>Rai, A K</creatorcontrib><creatorcontrib>Mugasimangalam, Raja</creatorcontrib><creatorcontrib>Parameswaran, Sriram</creatorcontrib><creatorcontrib>Singh, Major</creatorcontrib><creatorcontrib>Naik, P S</creatorcontrib><title>De Novo Assembly of Bitter Gourd Transcriptomes: Gene Expression and Sequence Variations in Gynoecious and Monoecious Lines</title><title>PloS one</title><addtitle>PLoS One</addtitle><description>Bitter gourd (Momordica charantia L.) is a nutritious vegetable crop of Asian origin, used as a medicinal herb in Indian and Chinese traditional medicine. Molecular breeding in bitter gourd is in its infancy, due to limited molecular resources, particularly on functional markers for traits such as gynoecy. We performed de novo transcriptome sequencing of bitter gourd using Illumina next-generation sequencer, from root, flower buds, stem and leaf samples of gynoecious line (Gy323) and a monoecious line (DRAR1). A total of 65,540 transcripts for Gy323 and 61,490 for DRAR1 were obtained. Comparisons revealed SNP and SSR variations between these lines and, identification of gene classes. Based on available transcripts we identified 80 WRKY transcription factors, several reported in responses to biotic and abiotic stresses; 56 ARF genes which play a pivotal role in auxin-regulated gene expression and development. The data presented will be useful in both functions studies and breeding programs in bitter gourd.</description><subject>Analysis</subject><subject>Bioinformatics</subject><subject>Biosynthesis</subject><subject>Breeding</subject><subject>Cucurbitaceae</subject><subject>Deoxyribonucleic acid</subject><subject>DNA</subject><subject>Flowers & plants</subject><subject>Gene expression</subject><subject>Gene Expression Regulation, Plant</subject><subject>Genes</subject><subject>Genes, Plant</subject><subject>Genetic diversity</subject><subject>Genetic Variation</subject><subject>Genomes</subject><subject>Herbal medicine</subject><subject>High-Throughput Nucleotide Sequencing</subject><subject>Medicinal plants</subject><subject>Medicine, Traditional</subject><subject>Microsatellite Repeats - genetics</subject><subject>Molecular chains</subject><subject>Momordica charantia</subject><subject>Momordica charantia - genetics</subject><subject>Plant Proteins - genetics</subject><subject>Plant Proteins - metabolism</subject><subject>Polymorphism, Single Nucleotide</subject><subject>Quality</subject><subject>Real-Time Polymerase Chain Reaction</subject><subject>Sequence Analysis, RNA</subject><subject>Single-nucleotide polymorphism</subject><subject>Transcription factors</subject><subject>Transcription Factors - genetics</subject><subject>Transcription Factors - metabolism</subject><subject>Transcriptome</subject><subject>Trends</subject><issn>1932-6203</issn><issn>1932-6203</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2015</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><sourceid>BENPR</sourceid><sourceid>DOA</sourceid><recordid>eNqNk11v0zAUhiMEYmPwDxBYQkJw0eKPOKm5QCpjlEqFSWzs1nL80bpK7GKn0yr-PG6bVQ3aBcpF7JPnvMfnjU-WvURwiEiJPiz9OjhRD1fe6SFEeEQIepSdIkbwoMCQPD5an2TPYlxCSMmoKJ5mJ7iAeYkgPs3-fNHgh7_1YByjbqp6A7wBn23b6gAmqYIC10G4KINdtb7R8SOYaKfBxd0q6Bitd0A4Ba7077V2UoMbEaxoUzgC68Bk47yW1q_jjvruD9uZdTo-z54YUUf9onufZb--XlyffxvMLifT8_FsIAuG24HABOcFqyCDwjBiKGYC04owOaoQlpVUSiGJWFpSqhARsJKYEmVMUZU0Z-Qse73XXdU-8s63yFExKjCiCKFETPeE8mLJV8E2Imy4F5bvAj7MuQitlbXmhmCFoKBMiSpPpSpdjaiBBlODcJ6TpPWpq7auGq2kdm0QdU-0_8XZBZ_7W57ntCwZTALvOoHgk62x5Y2NUte1cDp5tzs3Y6ykW_TNP-jD3XXUXKQGrDM-1ZVbUT7OUVEUOSu3WsMHqPQo3ViZLpmxKd5LeN9LSEyr79q5WMfIp1c__5-9vOmzb4_YhRZ1u4i-Xu-uVR_M96AMPsagzcFkBPl2Ru7d4NsZ4d2MpLRXxz_okHQ_FOQv0eYNGQ</recordid><startdate>20150605</startdate><enddate>20150605</enddate><creator>Shukla, Anjali</creator><creator>Singh, V K</creator><creator>Bharadwaj, D R</creator><creator>Kumar, Rajesh</creator><creator>Rai, Ashutosh</creator><creator>Rai, A K</creator><creator>Mugasimangalam, Raja</creator><creator>Parameswaran, Sriram</creator><creator>Singh, Major</creator><creator>Naik, P S</creator><general>Public Library of Science</general><general>Public Library of Science (PLoS)</general><scope>CGR</scope><scope>CUY</scope><scope>CVF</scope><scope>ECM</scope><scope>EIF</scope><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>IOV</scope><scope>ISR</scope><scope>3V.</scope><scope>7QG</scope><scope>7QL</scope><scope>7QO</scope><scope>7RV</scope><scope>7SN</scope><scope>7SS</scope><scope>7T5</scope><scope>7TG</scope><scope>7TM</scope><scope>7U9</scope><scope>7X2</scope><scope>7X7</scope><scope>7XB</scope><scope>88E</scope><scope>8AO</scope><scope>8C1</scope><scope>8FD</scope><scope>8FE</scope><scope>8FG</scope><scope>8FH</scope><scope>8FI</scope><scope>8FJ</scope><scope>8FK</scope><scope>ABJCF</scope><scope>ABUWG</scope><scope>AEUYN</scope><scope>AFKRA</scope><scope>ARAPS</scope><scope>ATCPS</scope><scope>AZQEC</scope><scope>BBNVY</scope><scope>BENPR</scope><scope>BGLVJ</scope><scope>BHPHI</scope><scope>C1K</scope><scope>CCPQU</scope><scope>D1I</scope><scope>DWQXO</scope><scope>FR3</scope><scope>FYUFA</scope><scope>GHDGH</scope><scope>GNUQQ</scope><scope>H94</scope><scope>HCIFZ</scope><scope>K9.</scope><scope>KB.</scope><scope>KB0</scope><scope>KL.</scope><scope>L6V</scope><scope>LK8</scope><scope>M0K</scope><scope>M0S</scope><scope>M1P</scope><scope>M7N</scope><scope>M7P</scope><scope>M7S</scope><scope>NAPCQ</scope><scope>P5Z</scope><scope>P62</scope><scope>P64</scope><scope>PATMY</scope><scope>PDBOC</scope><scope>PIMPY</scope><scope>PQEST</scope><scope>PQQKQ</scope><scope>PQUKI</scope><scope>PRINS</scope><scope>PTHSS</scope><scope>PYCSY</scope><scope>RC3</scope><scope>7X8</scope><scope>5PM</scope><scope>DOA</scope></search><sort><creationdate>20150605</creationdate><title>De Novo Assembly of Bitter Gourd Transcriptomes: Gene Expression and Sequence Variations in Gynoecious and Monoecious Lines</title><author>Shukla, Anjali ; Singh, V K ; Bharadwaj, D R ; Kumar, Rajesh ; Rai, Ashutosh ; Rai, A K ; Mugasimangalam, Raja ; Parameswaran, Sriram ; Singh, Major ; Naik, P S</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c692t-a232469b090af93f529a25b39c8b12cbcddd1c192cb55d13a0bc253dff6b75493</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2015</creationdate><topic>Analysis</topic><topic>Bioinformatics</topic><topic>Biosynthesis</topic><topic>Breeding</topic><topic>Cucurbitaceae</topic><topic>Deoxyribonucleic acid</topic><topic>DNA</topic><topic>Flowers & plants</topic><topic>Gene expression</topic><topic>Gene Expression Regulation, Plant</topic><topic>Genes</topic><topic>Genes, Plant</topic><topic>Genetic diversity</topic><topic>Genetic Variation</topic><topic>Genomes</topic><topic>Herbal medicine</topic><topic>High-Throughput Nucleotide Sequencing</topic><topic>Medicinal plants</topic><topic>Medicine, Traditional</topic><topic>Microsatellite Repeats - genetics</topic><topic>Molecular chains</topic><topic>Momordica charantia</topic><topic>Momordica charantia - genetics</topic><topic>Plant Proteins - genetics</topic><topic>Plant Proteins - metabolism</topic><topic>Polymorphism, Single Nucleotide</topic><topic>Quality</topic><topic>Real-Time Polymerase Chain Reaction</topic><topic>Sequence Analysis, RNA</topic><topic>Single-nucleotide polymorphism</topic><topic>Transcription factors</topic><topic>Transcription Factors - genetics</topic><topic>Transcription Factors - metabolism</topic><topic>Transcriptome</topic><topic>Trends</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Shukla, Anjali</creatorcontrib><creatorcontrib>Singh, V K</creatorcontrib><creatorcontrib>Bharadwaj, D R</creatorcontrib><creatorcontrib>Kumar, Rajesh</creatorcontrib><creatorcontrib>Rai, Ashutosh</creatorcontrib><creatorcontrib>Rai, A K</creatorcontrib><creatorcontrib>Mugasimangalam, Raja</creatorcontrib><creatorcontrib>Parameswaran, Sriram</creatorcontrib><creatorcontrib>Singh, Major</creatorcontrib><creatorcontrib>Naik, P S</creatorcontrib><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>Gale In Context: Opposing Viewpoints</collection><collection>Gale In Context: Science</collection><collection>ProQuest Central (Corporate)</collection><collection>Animal Behavior Abstracts</collection><collection>Bacteriology Abstracts (Microbiology B)</collection><collection>Biotechnology Research Abstracts</collection><collection>Nursing & Allied Health Database</collection><collection>Ecology Abstracts</collection><collection>Entomology Abstracts (Full archive)</collection><collection>Immunology Abstracts</collection><collection>Meteorological & Geoastrophysical Abstracts</collection><collection>Nucleic Acids Abstracts</collection><collection>Virology and AIDS Abstracts</collection><collection>Agricultural Science Collection</collection><collection>Health & Medical Collection</collection><collection>ProQuest Central (purchase pre-March 2016)</collection><collection>Medical Database (Alumni Edition)</collection><collection>ProQuest Pharma Collection</collection><collection>Public Health Database</collection><collection>Technology Research Database</collection><collection>ProQuest SciTech Collection</collection><collection>ProQuest Technology Collection</collection><collection>ProQuest Natural Science Collection</collection><collection>Hospital Premium Collection</collection><collection>Hospital Premium Collection (Alumni Edition)</collection><collection>ProQuest Central (Alumni) (purchase pre-March 2016)</collection><collection>Materials Science & Engineering Collection</collection><collection>ProQuest Central (Alumni Edition)</collection><collection>ProQuest One Sustainability</collection><collection>ProQuest Central UK/Ireland</collection><collection>Advanced Technologies & Aerospace Collection</collection><collection>Agricultural & Environmental Science Collection</collection><collection>ProQuest Central Essentials</collection><collection>Biological Science Collection</collection><collection>ProQuest Central</collection><collection>Technology Collection</collection><collection>Natural Science Collection</collection><collection>Environmental Sciences and Pollution Management</collection><collection>ProQuest One Community College</collection><collection>ProQuest Materials Science Collection</collection><collection>ProQuest Central Korea</collection><collection>Engineering Research Database</collection><collection>Health Research Premium Collection</collection><collection>Health Research Premium Collection (Alumni)</collection><collection>ProQuest Central Student</collection><collection>AIDS and Cancer Research Abstracts</collection><collection>SciTech Premium Collection</collection><collection>ProQuest Health & Medical Complete (Alumni)</collection><collection>Materials Science Database</collection><collection>Nursing & Allied Health Database (Alumni Edition)</collection><collection>Meteorological & Geoastrophysical Abstracts - Academic</collection><collection>ProQuest Engineering Collection</collection><collection>ProQuest Biological Science Collection</collection><collection>Agricultural Science Database</collection><collection>Health & Medical Collection (Alumni Edition)</collection><collection>Medical Database</collection><collection>Algology Mycology and Protozoology Abstracts (Microbiology C)</collection><collection>Biological Science Database</collection><collection>Engineering Database</collection><collection>Nursing & Allied Health Premium</collection><collection>Advanced Technologies & Aerospace Database</collection><collection>ProQuest Advanced Technologies & Aerospace Collection</collection><collection>Biotechnology and BioEngineering Abstracts</collection><collection>Environmental Science Database</collection><collection>Materials Science Collection</collection><collection>Publicly Available Content Database</collection><collection>ProQuest One Academic Eastern Edition (DO NOT USE)</collection><collection>ProQuest One Academic</collection><collection>ProQuest One Academic UKI Edition</collection><collection>ProQuest Central China</collection><collection>Engineering Collection</collection><collection>Environmental Science Collection</collection><collection>Genetics Abstracts</collection><collection>MEDLINE - Academic</collection><collection>PubMed Central (Full Participant titles)</collection><collection>DOAJ Directory of Open Access Journals</collection><jtitle>PloS one</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Shukla, Anjali</au><au>Singh, V K</au><au>Bharadwaj, D R</au><au>Kumar, Rajesh</au><au>Rai, Ashutosh</au><au>Rai, A K</au><au>Mugasimangalam, Raja</au><au>Parameswaran, Sriram</au><au>Singh, Major</au><au>Naik, P S</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>De Novo Assembly of Bitter Gourd Transcriptomes: Gene Expression and Sequence Variations in Gynoecious and Monoecious Lines</atitle><jtitle>PloS one</jtitle><addtitle>PLoS One</addtitle><date>2015-06-05</date><risdate>2015</risdate><volume>10</volume><issue>6</issue><spage>e0128331</spage><epage>e0128331</epage><pages>e0128331-e0128331</pages><issn>1932-6203</issn><eissn>1932-6203</eissn><abstract>Bitter gourd (Momordica charantia L.) is a nutritious vegetable crop of Asian origin, used as a medicinal herb in Indian and Chinese traditional medicine. Molecular breeding in bitter gourd is in its infancy, due to limited molecular resources, particularly on functional markers for traits such as gynoecy. We performed de novo transcriptome sequencing of bitter gourd using Illumina next-generation sequencer, from root, flower buds, stem and leaf samples of gynoecious line (Gy323) and a monoecious line (DRAR1). A total of 65,540 transcripts for Gy323 and 61,490 for DRAR1 were obtained. Comparisons revealed SNP and SSR variations between these lines and, identification of gene classes. Based on available transcripts we identified 80 WRKY transcription factors, several reported in responses to biotic and abiotic stresses; 56 ARF genes which play a pivotal role in auxin-regulated gene expression and development. The data presented will be useful in both functions studies and breeding programs in bitter gourd.</abstract><cop>United States</cop><pub>Public Library of Science</pub><pmid>26047102</pmid><doi>10.1371/journal.pone.0128331</doi><oa>free_for_read</oa></addata></record> |
| fulltext | fulltext |
| identifier | ISSN: 1932-6203 |
| ispartof | PloS one, 2015-06, Vol.10 (6), p.e0128331-e0128331 |
| issn | 1932-6203 1932-6203 |
| language | eng |
| recordid | cdi_plos_journals_1686215111 |
| source | MEDLINE; DOAJ Directory of Open Access Journals; Elektronische Zeitschriftenbibliothek - Frei zugängliche E-Journals; PubMed Central; Free Full-Text Journals in Chemistry; Public Library of Science (PLoS) |
| subjects | Analysis Bioinformatics Biosynthesis Breeding Cucurbitaceae Deoxyribonucleic acid DNA Flowers & plants Gene expression Gene Expression Regulation, Plant Genes Genes, Plant Genetic diversity Genetic Variation Genomes Herbal medicine High-Throughput Nucleotide Sequencing Medicinal plants Medicine, Traditional Microsatellite Repeats - genetics Molecular chains Momordica charantia Momordica charantia - genetics Plant Proteins - genetics Plant Proteins - metabolism Polymorphism, Single Nucleotide Quality Real-Time Polymerase Chain Reaction Sequence Analysis, RNA Single-nucleotide polymorphism Transcription factors Transcription Factors - genetics Transcription Factors - metabolism Transcriptome Trends |
| title | De Novo Assembly of Bitter Gourd Transcriptomes: Gene Expression and Sequence Variations in Gynoecious and Monoecious Lines |
| url | https://sfx.bib-bvb.de/sfx_tum?ctx_ver=Z39.88-2004&ctx_enc=info:ofi/enc:UTF-8&ctx_tim=2025-02-05T11%3A32%3A19IST&url_ver=Z39.88-2004&url_ctx_fmt=infofi/fmt:kev:mtx:ctx&rfr_id=info:sid/primo.exlibrisgroup.com:primo3-Article-gale_plos_&rft_val_fmt=info:ofi/fmt:kev:mtx:journal&rft.genre=article&rft.atitle=De%20Novo%20Assembly%20of%20Bitter%20Gourd%20Transcriptomes:%20Gene%20Expression%20and%20Sequence%20Variations%20in%20Gynoecious%20and%20Monoecious%20Lines&rft.jtitle=PloS%20one&rft.au=Shukla,%20Anjali&rft.date=2015-06-05&rft.volume=10&rft.issue=6&rft.spage=e0128331&rft.epage=e0128331&rft.pages=e0128331-e0128331&rft.issn=1932-6203&rft.eissn=1932-6203&rft_id=info:doi/10.1371/journal.pone.0128331&rft_dat=%3Cgale_plos_%3EA416664970%3C/gale_plos_%3E%3Curl%3E%3C/url%3E&disable_directlink=true&sfx.directlink=off&sfx.report_link=0&rft_id=info:oai/&rft_pqid=1686215111&rft_id=info:pmid/26047102&rft_galeid=A416664970&rft_doaj_id=oai_doaj_org_article_f32d10a59dab4a0bbeb85f0f25f12443&rfr_iscdi=true |