Loading…
Genetic Structure Analysis in Sugarcane (Saccharum spp.) Using Target Region Amplification Polymorphism (TRAP) Markers Based on Sugar- and Lignin-Related Genes and Potential Application in Core Collection Development
Sugarcane is a main bioenergy crop and is highlighted worldwide in sugar, ethanol, and biomass production. Sugar and lignin contents are important quality traits for traditional and energy cane cultivar development, respectively. In the present study, genetic variability of a broad group of sugarcan...
Saved in:
Published in: | Sugar tech : an international journal of sugar crops & related industries 2020-08, Vol.22 (4), p.641-654 |
---|---|
Main Authors: | , , , , , , |
Format: | Article |
Language: | English |
Subjects: | |
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-f0eec4e0a264e5b8af932c49cf6335227fc49bba0212344577440a892e9f98cd3 |
---|---|
cites | cdi_FETCH-LOGICAL-c319t-f0eec4e0a264e5b8af932c49cf6335227fc49bba0212344577440a892e9f98cd3 |
container_end_page | 654 |
container_issue | 4 |
container_start_page | 641 |
container_title | Sugar tech : an international journal of sugar crops & related industries |
container_volume | 22 |
creator | Junior, Carlos Augusto Dias Kanthack Manechini, João Ricardo Vieira Corrêa, Ronan Xavier Pinto, Ana Christina Rossini da Costa, Juliana Borges Favero, Thais Monteiro Pinto, Luciana Rossini |
description | Sugarcane is a main bioenergy crop and is highlighted worldwide in sugar, ethanol, and biomass production. Sugar and lignin contents are important quality traits for traditional and energy cane cultivar development, respectively. In the present study, genetic variability of a broad group of sugarcane basic germplasm accessions encompassing wild relatives and traditional and modern cultivars was assessed using target region amplification polymorphism (TRAP) markers derived from candidate genes involved in sugar and lignin metabolism. In total, 823 polymorphic markers (483 for sugar and 340 for lignin metabolism genes) were amplified; the average polymorphism information content values were highest for sugarcane wild relatives followed by traditional cultivars and modern cultivars. Genetic variability of the 96 genotypes captured by TRAP candidate genes for sugar and lignin metabolism was structured into two and three subpopulations, respectively. Based on the membership proportion (
Q
), modern cultivars inherited variability for genes involved in sugar metabolism from both
S. officinarum
and
S. spontaneum.
The genetic differentiation index based on sugar and lignin metabolism genes suggests moderate genetic differentiation among wild relatives, traditional cultivars, and modern cultivars. A core collection was established for sugar and lignin TRAP markers. Values for average genetic distance for the core collection based on sugar (0.761) and lignin (0.804) TRAP-derived markers were higher than those observed for all accessions, indicating that the core collections retained the most divergent accessions. |
doi_str_mv | 10.1007/s12355-019-00791-0 |
format | article |
fullrecord | <record><control><sourceid>proquest_cross</sourceid><recordid>TN_cdi_proquest_journals_2418754630</recordid><sourceformat>XML</sourceformat><sourcesystem>PC</sourcesystem><sourcerecordid>2418754630</sourcerecordid><originalsourceid>FETCH-LOGICAL-c319t-f0eec4e0a264e5b8af932c49cf6335227fc49bba0212344577440a892e9f98cd3</originalsourceid><addsrcrecordid>eNp9UU2P0zAQjRBILAt_gJMlLrsHL7bjNPUxdGFBKqJqu-do6k6yXhw72A5S_yk_B_dD4sbJnpn33jzNK4r3nN1xxuqPkYuyqijjiuZSccpeFFdM1ZKyWrKXp7-gvBLV6-JNjM-MzUSt1FXx5wEdJqPJJoVJpykgaRzYQzSRGEc2Uw9Bg0NyswGtnyBMA4njeHdLHqNxPdlC6DGRNfbGO9IMozWd0ZCO1crbw-DD-GTiQG6262Z1S75D-Ikhkk8QcU_8ZQMl4PZkaXpnHF2jhZSHR2fxNFj5hC4ZsKQZ84KLfLa38NnvwluL-tS6x99o_Thk9NviVQc24rvLe108fvm8XXylyx8P3xbNkuqSq0Q7hqglMhAzidVuDp0qhZZKd7OyrISou1zsdsBEvrCUVV1LyWCuBKpOzfW-vC4-nHXH4H9NGFP77KeQTxhbIfm8ruSsZBklzigdfIwBu3YMZoBwaDlrjwm25wTbnGB7SrA9ksozKWaw6zH8k_4P6y-dUKFn</addsrcrecordid><sourcetype>Aggregation Database</sourcetype><iscdi>true</iscdi><recordtype>article</recordtype><pqid>2418754630</pqid></control><display><type>article</type><title>Genetic Structure Analysis in Sugarcane (Saccharum spp.) Using Target Region Amplification Polymorphism (TRAP) Markers Based on Sugar- and Lignin-Related Genes and Potential Application in Core Collection Development</title><source>Springer Link</source><creator>Junior, Carlos Augusto Dias Kanthack ; Manechini, João Ricardo Vieira ; Corrêa, Ronan Xavier ; Pinto, Ana Christina Rossini ; da Costa, Juliana Borges ; Favero, Thais Monteiro ; Pinto, Luciana Rossini</creator><creatorcontrib>Junior, Carlos Augusto Dias Kanthack ; Manechini, João Ricardo Vieira ; Corrêa, Ronan Xavier ; Pinto, Ana Christina Rossini ; da Costa, Juliana Borges ; Favero, Thais Monteiro ; Pinto, Luciana Rossini</creatorcontrib><description>Sugarcane is a main bioenergy crop and is highlighted worldwide in sugar, ethanol, and biomass production. Sugar and lignin contents are important quality traits for traditional and energy cane cultivar development, respectively. In the present study, genetic variability of a broad group of sugarcane basic germplasm accessions encompassing wild relatives and traditional and modern cultivars was assessed using target region amplification polymorphism (TRAP) markers derived from candidate genes involved in sugar and lignin metabolism. In total, 823 polymorphic markers (483 for sugar and 340 for lignin metabolism genes) were amplified; the average polymorphism information content values were highest for sugarcane wild relatives followed by traditional cultivars and modern cultivars. Genetic variability of the 96 genotypes captured by TRAP candidate genes for sugar and lignin metabolism was structured into two and three subpopulations, respectively. Based on the membership proportion (
Q
), modern cultivars inherited variability for genes involved in sugar metabolism from both
S. officinarum
and
S. spontaneum.
The genetic differentiation index based on sugar and lignin metabolism genes suggests moderate genetic differentiation among wild relatives, traditional cultivars, and modern cultivars. A core collection was established for sugar and lignin TRAP markers. Values for average genetic distance for the core collection based on sugar (0.761) and lignin (0.804) TRAP-derived markers were higher than those observed for all accessions, indicating that the core collections retained the most divergent accessions.</description><identifier>ISSN: 0972-1525</identifier><identifier>EISSN: 0974-0740</identifier><identifier>DOI: 10.1007/s12355-019-00791-0</identifier><language>eng</language><publisher>New Delhi: Springer India</publisher><subject>Agriculture ; Amplification ; Biomarkers ; Biomass ; Biomedical and Life Sciences ; Collection ; Cultivars ; Differentiation ; Ethanol ; Gene polymorphism ; Genes ; Genetic analysis ; Genetic distance ; Genetic structure ; Genetic variability ; Genotypes ; Germplasm ; Life Sciences ; Lignin ; Metabolism ; Polymorphism ; Renewable energy ; Research Article ; Structural analysis ; Subpopulations ; Sugar ; Sugarcane</subject><ispartof>Sugar tech : an international journal of sugar crops & related industries, 2020-08, Vol.22 (4), p.641-654</ispartof><rights>Society for Sugar Research & Promotion 2020</rights><rights>Society for Sugar Research & Promotion 2020.</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c319t-f0eec4e0a264e5b8af932c49cf6335227fc49bba0212344577440a892e9f98cd3</citedby><cites>FETCH-LOGICAL-c319t-f0eec4e0a264e5b8af932c49cf6335227fc49bba0212344577440a892e9f98cd3</cites><orcidid>0000-0002-7369-7609</orcidid></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>Junior, Carlos Augusto Dias Kanthack</creatorcontrib><creatorcontrib>Manechini, João Ricardo Vieira</creatorcontrib><creatorcontrib>Corrêa, Ronan Xavier</creatorcontrib><creatorcontrib>Pinto, Ana Christina Rossini</creatorcontrib><creatorcontrib>da Costa, Juliana Borges</creatorcontrib><creatorcontrib>Favero, Thais Monteiro</creatorcontrib><creatorcontrib>Pinto, Luciana Rossini</creatorcontrib><title>Genetic Structure Analysis in Sugarcane (Saccharum spp.) Using Target Region Amplification Polymorphism (TRAP) Markers Based on Sugar- and Lignin-Related Genes and Potential Application in Core Collection Development</title><title>Sugar tech : an international journal of sugar crops & related industries</title><addtitle>Sugar Tech</addtitle><description>Sugarcane is a main bioenergy crop and is highlighted worldwide in sugar, ethanol, and biomass production. Sugar and lignin contents are important quality traits for traditional and energy cane cultivar development, respectively. In the present study, genetic variability of a broad group of sugarcane basic germplasm accessions encompassing wild relatives and traditional and modern cultivars was assessed using target region amplification polymorphism (TRAP) markers derived from candidate genes involved in sugar and lignin metabolism. In total, 823 polymorphic markers (483 for sugar and 340 for lignin metabolism genes) were amplified; the average polymorphism information content values were highest for sugarcane wild relatives followed by traditional cultivars and modern cultivars. Genetic variability of the 96 genotypes captured by TRAP candidate genes for sugar and lignin metabolism was structured into two and three subpopulations, respectively. Based on the membership proportion (
Q
), modern cultivars inherited variability for genes involved in sugar metabolism from both
S. officinarum
and
S. spontaneum.
The genetic differentiation index based on sugar and lignin metabolism genes suggests moderate genetic differentiation among wild relatives, traditional cultivars, and modern cultivars. A core collection was established for sugar and lignin TRAP markers. Values for average genetic distance for the core collection based on sugar (0.761) and lignin (0.804) TRAP-derived markers were higher than those observed for all accessions, indicating that the core collections retained the most divergent accessions.</description><subject>Agriculture</subject><subject>Amplification</subject><subject>Biomarkers</subject><subject>Biomass</subject><subject>Biomedical and Life Sciences</subject><subject>Collection</subject><subject>Cultivars</subject><subject>Differentiation</subject><subject>Ethanol</subject><subject>Gene polymorphism</subject><subject>Genes</subject><subject>Genetic analysis</subject><subject>Genetic distance</subject><subject>Genetic structure</subject><subject>Genetic variability</subject><subject>Genotypes</subject><subject>Germplasm</subject><subject>Life Sciences</subject><subject>Lignin</subject><subject>Metabolism</subject><subject>Polymorphism</subject><subject>Renewable energy</subject><subject>Research Article</subject><subject>Structural analysis</subject><subject>Subpopulations</subject><subject>Sugar</subject><subject>Sugarcane</subject><issn>0972-1525</issn><issn>0974-0740</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2020</creationdate><recordtype>article</recordtype><recordid>eNp9UU2P0zAQjRBILAt_gJMlLrsHL7bjNPUxdGFBKqJqu-do6k6yXhw72A5S_yk_B_dD4sbJnpn33jzNK4r3nN1xxuqPkYuyqijjiuZSccpeFFdM1ZKyWrKXp7-gvBLV6-JNjM-MzUSt1FXx5wEdJqPJJoVJpykgaRzYQzSRGEc2Uw9Bg0NyswGtnyBMA4njeHdLHqNxPdlC6DGRNfbGO9IMozWd0ZCO1crbw-DD-GTiQG6262Z1S75D-Ikhkk8QcU_8ZQMl4PZkaXpnHF2jhZSHR2fxNFj5hC4ZsKQZ84KLfLa38NnvwluL-tS6x99o_Thk9NviVQc24rvLe108fvm8XXylyx8P3xbNkuqSq0Q7hqglMhAzidVuDp0qhZZKd7OyrISou1zsdsBEvrCUVV1LyWCuBKpOzfW-vC4-nHXH4H9NGFP77KeQTxhbIfm8ruSsZBklzigdfIwBu3YMZoBwaDlrjwm25wTbnGB7SrA9ksozKWaw6zH8k_4P6y-dUKFn</recordid><startdate>20200801</startdate><enddate>20200801</enddate><creator>Junior, Carlos Augusto Dias Kanthack</creator><creator>Manechini, João Ricardo Vieira</creator><creator>Corrêa, Ronan Xavier</creator><creator>Pinto, Ana Christina Rossini</creator><creator>da Costa, Juliana Borges</creator><creator>Favero, Thais Monteiro</creator><creator>Pinto, Luciana Rossini</creator><general>Springer India</general><general>Springer Nature B.V</general><scope>AAYXX</scope><scope>CITATION</scope><orcidid>https://orcid.org/0000-0002-7369-7609</orcidid></search><sort><creationdate>20200801</creationdate><title>Genetic Structure Analysis in Sugarcane (Saccharum spp.) Using Target Region Amplification Polymorphism (TRAP) Markers Based on Sugar- and Lignin-Related Genes and Potential Application in Core Collection Development</title><author>Junior, Carlos Augusto Dias Kanthack ; Manechini, João Ricardo Vieira ; Corrêa, Ronan Xavier ; Pinto, Ana Christina Rossini ; da Costa, Juliana Borges ; Favero, Thais Monteiro ; Pinto, Luciana Rossini</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c319t-f0eec4e0a264e5b8af932c49cf6335227fc49bba0212344577440a892e9f98cd3</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2020</creationdate><topic>Agriculture</topic><topic>Amplification</topic><topic>Biomarkers</topic><topic>Biomass</topic><topic>Biomedical and Life Sciences</topic><topic>Collection</topic><topic>Cultivars</topic><topic>Differentiation</topic><topic>Ethanol</topic><topic>Gene polymorphism</topic><topic>Genes</topic><topic>Genetic analysis</topic><topic>Genetic distance</topic><topic>Genetic structure</topic><topic>Genetic variability</topic><topic>Genotypes</topic><topic>Germplasm</topic><topic>Life Sciences</topic><topic>Lignin</topic><topic>Metabolism</topic><topic>Polymorphism</topic><topic>Renewable energy</topic><topic>Research Article</topic><topic>Structural analysis</topic><topic>Subpopulations</topic><topic>Sugar</topic><topic>Sugarcane</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Junior, Carlos Augusto Dias Kanthack</creatorcontrib><creatorcontrib>Manechini, João Ricardo Vieira</creatorcontrib><creatorcontrib>Corrêa, Ronan Xavier</creatorcontrib><creatorcontrib>Pinto, Ana Christina Rossini</creatorcontrib><creatorcontrib>da Costa, Juliana Borges</creatorcontrib><creatorcontrib>Favero, Thais Monteiro</creatorcontrib><creatorcontrib>Pinto, Luciana Rossini</creatorcontrib><collection>CrossRef</collection><jtitle>Sugar tech : an international journal of sugar crops & related industries</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Junior, Carlos Augusto Dias Kanthack</au><au>Manechini, João Ricardo Vieira</au><au>Corrêa, Ronan Xavier</au><au>Pinto, Ana Christina Rossini</au><au>da Costa, Juliana Borges</au><au>Favero, Thais Monteiro</au><au>Pinto, Luciana Rossini</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Genetic Structure Analysis in Sugarcane (Saccharum spp.) Using Target Region Amplification Polymorphism (TRAP) Markers Based on Sugar- and Lignin-Related Genes and Potential Application in Core Collection Development</atitle><jtitle>Sugar tech : an international journal of sugar crops & related industries</jtitle><stitle>Sugar Tech</stitle><date>2020-08-01</date><risdate>2020</risdate><volume>22</volume><issue>4</issue><spage>641</spage><epage>654</epage><pages>641-654</pages><issn>0972-1525</issn><eissn>0974-0740</eissn><abstract>Sugarcane is a main bioenergy crop and is highlighted worldwide in sugar, ethanol, and biomass production. Sugar and lignin contents are important quality traits for traditional and energy cane cultivar development, respectively. In the present study, genetic variability of a broad group of sugarcane basic germplasm accessions encompassing wild relatives and traditional and modern cultivars was assessed using target region amplification polymorphism (TRAP) markers derived from candidate genes involved in sugar and lignin metabolism. In total, 823 polymorphic markers (483 for sugar and 340 for lignin metabolism genes) were amplified; the average polymorphism information content values were highest for sugarcane wild relatives followed by traditional cultivars and modern cultivars. Genetic variability of the 96 genotypes captured by TRAP candidate genes for sugar and lignin metabolism was structured into two and three subpopulations, respectively. Based on the membership proportion (
Q
), modern cultivars inherited variability for genes involved in sugar metabolism from both
S. officinarum
and
S. spontaneum.
The genetic differentiation index based on sugar and lignin metabolism genes suggests moderate genetic differentiation among wild relatives, traditional cultivars, and modern cultivars. A core collection was established for sugar and lignin TRAP markers. Values for average genetic distance for the core collection based on sugar (0.761) and lignin (0.804) TRAP-derived markers were higher than those observed for all accessions, indicating that the core collections retained the most divergent accessions.</abstract><cop>New Delhi</cop><pub>Springer India</pub><doi>10.1007/s12355-019-00791-0</doi><tpages>14</tpages><orcidid>https://orcid.org/0000-0002-7369-7609</orcidid></addata></record> |
fulltext | fulltext |
identifier | ISSN: 0972-1525 |
ispartof | Sugar tech : an international journal of sugar crops & related industries, 2020-08, Vol.22 (4), p.641-654 |
issn | 0972-1525 0974-0740 |
language | eng |
recordid | cdi_proquest_journals_2418754630 |
source | Springer Link |
subjects | Agriculture Amplification Biomarkers Biomass Biomedical and Life Sciences Collection Cultivars Differentiation Ethanol Gene polymorphism Genes Genetic analysis Genetic distance Genetic structure Genetic variability Genotypes Germplasm Life Sciences Lignin Metabolism Polymorphism Renewable energy Research Article Structural analysis Subpopulations Sugar Sugarcane |
title | Genetic Structure Analysis in Sugarcane (Saccharum spp.) Using Target Region Amplification Polymorphism (TRAP) Markers Based on Sugar- and Lignin-Related Genes and Potential Application in Core Collection Development |
url | http://sfxeu10.hosted.exlibrisgroup.com/loughborough?ctx_ver=Z39.88-2004&ctx_enc=info:ofi/enc:UTF-8&ctx_tim=2024-12-25T02%3A27%3A32IST&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=Genetic%20Structure%20Analysis%20in%20Sugarcane%20(Saccharum%20spp.)%20Using%20Target%20Region%20Amplification%20Polymorphism%20(TRAP)%20Markers%20Based%20on%20Sugar-%20and%20Lignin-Related%20Genes%20and%20Potential%20Application%20in%20Core%20Collection%20Development&rft.jtitle=Sugar%20tech%20:%20an%20international%20journal%20of%20sugar%20crops%20&%20related%20industries&rft.au=Junior,%20Carlos%20Augusto%20Dias%20Kanthack&rft.date=2020-08-01&rft.volume=22&rft.issue=4&rft.spage=641&rft.epage=654&rft.pages=641-654&rft.issn=0972-1525&rft.eissn=0974-0740&rft_id=info:doi/10.1007/s12355-019-00791-0&rft_dat=%3Cproquest_cross%3E2418754630%3C/proquest_cross%3E%3Cgrp_id%3Ecdi_FETCH-LOGICAL-c319t-f0eec4e0a264e5b8af932c49cf6335227fc49bba0212344577440a892e9f98cd3%3C/grp_id%3E%3Coa%3E%3C/oa%3E%3Curl%3E%3C/url%3E&rft_id=info:oai/&rft_pqid=2418754630&rft_id=info:pmid/&rfr_iscdi=true |