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Article(id=1236340108463501343, tenantId=1146029695717560320, journalId=1235980609244409860, issueId=1236340101991691008, articleNumber=null, orderNo=null, doi=10.3969/j.issn.1000-2561.2023.03.008, pmid=null, cstr=null, oa=null, hot=null, price=null, onlineType=0, articleFormat=0, articleType=null, articleTypeStr=null, receivedDate=1654531200000, receivedDateStr=2022-06-07, revisedDate=1657036800000, revisedDateStr=2022-07-06, acceptedDate=null, acceptedDateStr=null, onlineDate=1772696051945, onlineDateStr=2026-03-05, pubDate=1679673600000, pubDateStr=2023-03-25, doiRegisterDate=null, doiRegisterDateStr=null, onlineIssueDate=1772696051945, onlineIssueDateStr=2026-03-05, onlineJustAcceptDate=null, onlineJustAcceptDateStr=null, onlineFirstDate=null, onlineFirstDateStr=null, sourceXml=null, magXml=null, createTime=1772696051945, creator=13701087609, updateTime=1772696051945, updator=13701087609, issue=Issue{id=1236340101991691008, tenantId=1146029695717560320, journalId=1235980609244409860, year='2023', volume='44', issue='3', pageStart='447', pageEnd='660', issueExtLink='null', onlineDate='null', pubDate='null', beforeIssueId=null, nextIssueId=null, price=null, status=1, issueComplete=1, articleOrder=1, issueType=-1, specialIssue=null, createTime=1772696050403, creator=13701087609, updateTime=1772696379070, updator=13701087609, preIssue=null, nextIssue=null, ext={EN=IssueExt(id=1236341480579715870, tenantId=1146029695717560320, journalId=1235980609244409860, issueId=1236340101991691008, language=EN, specialIssueTitle=, coverIllustrator=null, specialIssueEditor=, specialIssueAbout=), CN=IssueExt(id=1236341480579715871, tenantId=1146029695717560320, journalId=1235980609244409860, issueId=1236340101991691008, language=CN, specialIssueTitle=, coverIllustrator=null, specialIssueEditor=, specialIssueAbout=)}, issueFiles=null}, startPage=516, endPage=525, ext={EN=ArticleExt(id=1236340108790657076, articleId=1236340108463501343, tenantId=1146029695717560320, journalId=1235980609244409860, language=EN, title=RAD-based Genomic Sequencing Analysis of Jatrohpha curcas L. in Yunnan to Reveal Its Genetic Diversity, columnId=1236256430060261740, journalTitle=Chinese Journal of Tropical Crops, columnName=Germplasm Resources, Genetics & Breeding, runingTitle=null, highlight=null, articleAbstract=

To gain insight into the genetic diversity and relationship of the tropic bioenergy plant physic nut (Jatropha curcas L.) in Yunnan, China, joint analysis of agronomic and molecular characters was performed in the present study, using different accessions collected from nine sources/geographical provenances in Yunnan. To investigate the population polymorphism, eight pairs of SSR molecular markers were developed by MISA program, and four of them with higher polymorphism were selected for PCR amplification using 95 DNA samples collected from nine populations. The results indicated that JC01 exhibited the best polymorphism (0.711). UPGMA clustering analysis suggested that Baoshan and Xishuangbanna might serve as the parents or origins of physic nut in Yunnan, which was partially related to the geographical origin of populations. Comprehensive investigations revealed among all examined biological traits of seeds or seedlings, the underground fresh weight (UFW) exhibited the highest coefficient of variation, with obvious separation among populations. Two individual seedlings with extreme variance in UFW (BNMH and CXYM) were selected for RAD-based genomic sequencing, while 2783 and 3033 contigs were assembled. Analysis of genome assembly data using GenomeScope revealed that both materials were diploid, and a total 22 756 valid SNPs were detected at the whole genome level using genome-wide association study (GWAS). High frequency-SNPs associated with UFW preferably located on LG9, and three candidate proteins were linked to the UFW trait. The results indicated that the physic nut germplasm collected from different regions of Yunnan exhibited a high level of genetic diversity and uniqueness, which should facilitate further studies on its molecular breeding.

, correspAuthors=Shasha WANG, Wei TANG, authorNote=null, correspAuthorsNote=null, copyrightStatement=null, copyrightOwner=null, extLink=null, articleAbsUrl=null, sourceXml=null, magXml=null, pdfUrl=null, pdf=null, pdfFileSize=null, pdfExtLink=null, richHtmlUrl=null, mobilePdfUrl=null, reviewReport=null, pdfFirstPage=null, abstractGraph=null, abstractGraphContent=null, abstractVideo=null, citation=null, cebUrl=null, magXmlContent=null, mapNumber=null, authorCompany=null, fund=null, authors=null, authorsList=Zhouyi ZHENG, Yuting LIU, Chun CHEN, Shasha WANG, Wei TANG), CN=ArticleExt(id=1236340109122007119, articleId=1236340108463501343, tenantId=1146029695717560320, journalId=1235980609244409860, language=CN, title=基于简化基因组测序分析云南小桐子遗传多样性, columnId=1236256430219645304, journalTitle=热带作物学报, columnName=种质资源与遗传育种, runingTitle=null, highlight=null, articleAbstract=

为深入了解云南省热带能源植物小桐子的遗传多样性和亲缘关系，本研究以云南省9个种源地的小桐子群体为材料展开联合分析。为了研究群体多态性，以MISA程序开发了8对SSR分子标记，PCR扩增后选取多态性较好的4对引物以9个居群95个材料DNA进行了扩增，发现JC01引物多态性最好，达0.711。聚类分析表明保山地区和西双版纳地区可能作为云南省小桐子的亲本或起源，各居群间亲缘关系和地理位置有一定相关性。本研究对各采集地种子和幼苗时期生物学性状的综合考察发现地下部分鲜重（UFW）性状群体变异系数最大，分离明显。选择UFW极端差异的2个居群（版纳勐海和楚雄元谋）以BSA分离法进行RAD简化基因组测序，基因组组装分别得到2783和3033条contigs，利用GenomeScope对基因组组装数据分析发现2份材料均为二倍体，GWAS分析在全基因组水平挖掘到有效SNPs 22 756个，其中UFW高频SNPs集中于9号染色体，有3个候选蛋白与UFW性状连锁。研究结果表明云南省不同地区小桐子居群具有较高的遗传多样性，初步明确了云南本地小桐子种质的独特性。

, correspAuthors=王莎莎, 唐唯, authorNote=null, correspAuthorsNote=
* 王莎莎（WANG Shasha），E-mail: ；
唐唯（TANG Wei），E-mail: 。
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郑周宜（2001—），女，本科生，研究方向：小桐子遗传育种。

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郑周宜（2001—），女，本科生，研究方向：小桐子遗传育种。

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郑周宜（2001—），女，本科生，研究方向：小桐子遗传育种。

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3.Engineering Research Center of Sustainable Development and Utilization of Biomass Energy, Ministry of Education, Kunming, Yunnan 650500, China
4.Key Lab of Yunnan Province for Biomass Energy and Environmental Biotechnology, Kunming, Yunnan 650500, China, bio=null, bioImg=null, bioContent=null, aboutCorrespAuthor=null), CN=AuthorExt(id=1236340111261102285, tenantId=1146029695717560320, journalId=1235980609244409860, articleId=1236340108463501343, authorId=1236340111047192769, language=CN, stringName=王莎莎, firstName=null, middleName=null, lastName=null, prefix=null, suffix=null, authorComment=null, nameInitials=null, affiliation=null, department=null, xref=1, 3, 4, *, address=1.云南师范大学生命科学学院，云南昆明　650500
3.生物能源持续开发利用教育部工程研究中心，云南昆明　650500
4.云南省生物质能与环境生物技术重点实验室，云南昆明　650500, bio=null, bioImg=null, bioContent=null, aboutCorrespAuthor=null)}, companyList=[AuthorCompany(id=1236340109432385636, tenantId=1146029695717560320, journalId=1235980609244409860, articleId=1236340108463501343, xref=1., ext=[AuthorCompanyExt(id=1236340109436579941, tenantId=1146029695717560320, journalId=1235980609244409860, articleId=1236340108463501343, companyId=1236340109432385636, language=EN, country=null, province=null, city=null, postcode=null, companyName=null, departmentName=null, remark=1.School of Life Sciences, Yunnan Normal University, Kunming, Yunnan 650500, China), AuthorCompanyExt(id=1236340109444968550, tenantId=1146029695717560320, journalId=1235980609244409860, articleId=1236340108463501343, companyId=1236340109432385636, language=CN, country=null, province=null, city=null, postcode=null, companyName=null, departmentName=null, remark=1.云南师范大学生命科学学院，云南昆明　650500)]), AuthorCompany(id=1236340109688238190, tenantId=1146029695717560320, journalId=1235980609244409860, articleId=1236340108463501343, xref=3., ext=[AuthorCompanyExt(id=1236340109696626799, tenantId=1146029695717560320, journalId=1235980609244409860, articleId=1236340108463501343, companyId=1236340109688238190, language=EN, country=null, province=null, city=null, postcode=null, companyName=null, departmentName=null, remark=3.Engineering Research Center of Sustainable Development and Utilization of Biomass Energy, Ministry of Education, Kunming, Yunnan 650500, China), AuthorCompanyExt(id=1236340109700821105, tenantId=1146029695717560320, journalId=1235980609244409860, articleId=1236340108463501343, companyId=1236340109688238190, language=CN, country=null, province=null, city=null, postcode=null, companyName=null, departmentName=null, remark=3.生物能源持续开发利用教育部工程研究中心，云南昆明　650500)]), AuthorCompany(id=1236340109801484406, tenantId=1146029695717560320, journalId=1235980609244409860, articleId=1236340108463501343, xref=4., ext=[AuthorCompanyExt(id=1236340109805678712, tenantId=1146029695717560320, journalId=1235980609244409860, articleId=1236340108463501343, companyId=1236340109801484406, language=EN, country=null, province=null, city=null, postcode=null, companyName=null, departmentName=null, remark=4.Key Lab of Yunnan Province for Biomass Energy and Environmental Biotechnology, Kunming, Yunnan 650500, China), AuthorCompanyExt(id=1236340109814067323, tenantId=1146029695717560320, journalId=1235980609244409860, articleId=1236340108463501343, companyId=1236340109801484406, language=CN, country=null, province=null, city=null, postcode=null, companyName=null, departmentName=null, remark=4.云南省生物质能与环境生物技术重点实验室，云南昆明　650500)])]), Author(id=1236340111361765590, tenantId=1146029695717560320, journalId=1235980609244409860, articleId=1236340108463501343, orderNo=4, firstName=null, middleName=null, lastName=null, nameCn=null, orcid=null, stid=null, country=null, authorPic=null, dead=0, email=4311@ynnu.edu.cn, emailSecond=null, emailThird=null, correspondingAuthor=1, authorType=1, ext={EN=AuthorExt(id=1236340111483400414, tenantId=1146029695717560320, journalId=1235980609244409860, articleId=1236340108463501343, authorId=1236340111361765590, language=EN, stringName=Wei TANG, firstName=Wei, middleName=null, lastName=TANG, prefix=null, suffix=null, authorComment=null, nameInitials=null, affiliation=null, department=null, xref=1, 2, 3, *, address=1.School of Life Sciences, Yunnan Normal University, Kunming, Yunnan 650500, China
2.Joint Academy of Potato Science, Yunnan Normal University, Kunming, Yunnan 650500, China
3.Engineering Research Center of Sustainable Development and Utilization of Biomass Energy, Ministry of Education, Kunming, Yunnan 650500, China, bio=null, bioImg=null, bioContent=null, aboutCorrespAuthor=null), CN=AuthorExt(id=1236340111567286498, tenantId=1146029695717560320, journalId=1235980609244409860, articleId=1236340108463501343, authorId=1236340111361765590, language=CN, stringName=唐唯, firstName=null, middleName=null, lastName=null, prefix=null, suffix=null, authorComment=null, nameInitials=null, affiliation=null, department=null, xref=1, 2, 3, *, address=1.云南师范大学生命科学学院，云南昆明　650500
2.云南师范大学马铃薯科学研究院，云南昆明　650500
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基于简化基因组测序分析云南小桐子遗传多样性
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郑周宜 1 , 刘雨婷 1 , 陈春 1 , 王莎莎 1, 3, 4, * , 唐唯 1, 2, 3, *
热带作物学报 | 种质资源与遗传育种 2023,44(3): 516-525
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热带作物学报 | 种质资源与遗传育种 2023, 44(3): 516-525
基于简化基因组测序分析云南小桐子遗传多样性
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郑周宜1, 刘雨婷1, 陈春1, 王莎莎1, 3, 4, * , 唐唯1, 2, 3, *
作者信息
  • 1.云南师范大学生命科学学院，云南昆明　650500
  • 2.云南师范大学马铃薯科学研究院，云南昆明　650500
  • 3.生物能源持续开发利用教育部工程研究中心，云南昆明　650500
  • 4.云南省生物质能与环境生物技术重点实验室，云南昆明　650500

    • 郑周宜（2001—），女，本科生，研究方向：小桐子遗传育种。

通讯作者:

* 王莎莎（WANG Shasha），E-mail: ；
唐唯（TANG Wei），E-mail: 。
RAD-based Genomic Sequencing Analysis of Jatrohpha curcas L. in Yunnan to Reveal Its Genetic Diversity
Zhouyi ZHENG1, Yuting LIU1, Chun CHEN1, Shasha WANG1, 3, 4, * , Wei TANG1, 2, 3, *
Affiliations
  • 1.School of Life Sciences, Yunnan Normal University, Kunming, Yunnan 650500, China
  • 2.Joint Academy of Potato Science, Yunnan Normal University, Kunming, Yunnan 650500, China
  • 3.Engineering Research Center of Sustainable Development and Utilization of Biomass Energy, Ministry of Education, Kunming, Yunnan 650500, China
  • 4.Key Lab of Yunnan Province for Biomass Energy and Environmental Biotechnology, Kunming, Yunnan 650500, China
出版时间: 2023-03-25 doi: 10.3969/j.issn.1000-2561.2023.03.008
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为深入了解云南省热带能源植物小桐子的遗传多样性和亲缘关系，本研究以云南省9个种源地的小桐子群体为材料展开联合分析。为了研究群体多态性，以MISA程序开发了8对SSR分子标记，PCR扩增后选取多态性较好的4对引物以9个居群95个材料DNA进行了扩增，发现JC01引物多态性最好，达0.711。聚类分析表明保山地区和西双版纳地区可能作为云南省小桐子的亲本或起源，各居群间亲缘关系和地理位置有一定相关性。本研究对各采集地种子和幼苗时期生物学性状的综合考察发现地下部分鲜重（UFW）性状群体变异系数最大，分离明显。选择UFW极端差异的2个居群（版纳勐海和楚雄元谋）以BSA分离法进行RAD简化基因组测序，基因组组装分别得到2783和3033条contigs，利用GenomeScope对基因组组装数据分析发现2份材料均为二倍体，GWAS分析在全基因组水平挖掘到有效SNPs 22 756个，其中UFW高频SNPs集中于9号染色体，有3个候选蛋白与UFW性状连锁。研究结果表明云南省不同地区小桐子居群具有较高的遗传多样性，初步明确了云南本地小桐子种质的独特性。

小桐子  /  遗传多样性  /  分子标记  /  全基因组关联分析  /  单核苷酸多态性

To gain insight into the genetic diversity and relationship of the tropic bioenergy plant physic nut (Jatropha curcas L.) in Yunnan, China, joint analysis of agronomic and molecular characters was performed in the present study, using different accessions collected from nine sources/geographical provenances in Yunnan. To investigate the population polymorphism, eight pairs of SSR molecular markers were developed by MISA program, and four of them with higher polymorphism were selected for PCR amplification using 95 DNA samples collected from nine populations. The results indicated that JC01 exhibited the best polymorphism (0.711). UPGMA clustering analysis suggested that Baoshan and Xishuangbanna might serve as the parents or origins of physic nut in Yunnan, which was partially related to the geographical origin of populations. Comprehensive investigations revealed among all examined biological traits of seeds or seedlings, the underground fresh weight (UFW) exhibited the highest coefficient of variation, with obvious separation among populations. Two individual seedlings with extreme variance in UFW (BNMH and CXYM) were selected for RAD-based genomic sequencing, while 2783 and 3033 contigs were assembled. Analysis of genome assembly data using GenomeScope revealed that both materials were diploid, and a total 22 756 valid SNPs were detected at the whole genome level using genome-wide association study (GWAS). High frequency-SNPs associated with UFW preferably located on LG9, and three candidate proteins were linked to the UFW trait. The results indicated that the physic nut germplasm collected from different regions of Yunnan exhibited a high level of genetic diversity and uniqueness, which should facilitate further studies on its molecular breeding.

physic nut (Jatropha curcas L.)  /  genetic diversity  /  molecular markers  /  GWAS  /  SNP
郑周宜, 刘雨婷, 陈春, 王莎莎, 唐唯. 基于简化基因组测序分析云南小桐子遗传多样性. 热带作物学报, 2023 , 44 (3) : 516 -525 . DOI: 10.3969/j.issn.1000-2561.2023.03.008
Zhouyi ZHENG, Yuting LIU, Chun CHEN, Shasha WANG, Wei TANG. RAD-based Genomic Sequencing Analysis of Jatrohpha curcas L. in Yunnan to Reveal Its Genetic Diversity[J]. Chinese Journal of Tropical Crops, 2023 , 44 (3) : 516 -525 . DOI: 10.3969/j.issn.1000-2561.2023.03.008
基金
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  • 国家自然科学基金项目(31860062)
  • 国家自然科学基金项目(31460182)
2023年第44卷第3期
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doi: 10.3969/j.issn.1000-2561.2023.03.008
  • 接收时间：2022-06-07
  • 首发时间：2026-03-05
  • 出版时间：2023-03-25
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  • 收稿日期：2022-06-07
  • 修回日期：2022-07-06
基金
国家自然科学基金项目(31860062)
国家自然科学基金项目(31460182)
作者信息
    1.云南师范大学生命科学学院，云南昆明　650500
    2.云南师范大学马铃薯科学研究院，云南昆明　650500
    3.生物能源持续开发利用教育部工程研究中心，云南昆明　650500
    4.云南省生物质能与环境生物技术重点实验室，云南昆明　650500

通讯作者:

* 王莎莎（WANG Shasha），E-mail: ；
唐唯（TANG Wei），E-mail: 。
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https://castjournals.cast.org.cn/joweb/rdzwxb/CN/10.3969/j.issn.1000-2561.2023.03.008
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2种不同金属材料的力学参数
科
Family		 属数
Number of
genus		 种数
Number of
species		 占总种数比例
Percentage of
total species (%)		 属
Genus		 种数
Number of
species		 占总种数比例
Percentage of total
species (%)
鹅膏菌科Amanitaceae 2 11 5.26 鹅膏菌属 Amanita 10 4.78
小菇科 Mycenaceae 2 12 5.74 丝盖伞属 Inocybe 5 2.39
多孔菌科 Polyporaceae 8 14 6.70 蜡蘑属 Laccaria 5 2.39
红菇科 Russulaceae 3 23 11.00 小皮伞属 Marasmius 6 2.87
小菇属 Mycena 11 5.26
光柄菇属 Pluteus 5 2.39
红菇属 Russula 17 8.13
栓菌属 Trametes 5 2.39
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