Development and Characterization of Microsatellite Markers Based on the Chloroplast Genome of Tree Peony

Tree peony (<i<Paeonia suffruticosa</i< Andr.) is a famous ornamental and medicinal flowering species. However, few high-efficiency chloroplast microsatellite markers have been developed for it to be employed in taxonomic identifications and evaluation of germplasm resources to date. In...
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Gespeichert in:

Autor*in:	Qi Guo [verfasserIn] Lili Guo [verfasserIn] Yuying Li [verfasserIn] Haijing Yang [verfasserIn] Xiaoliang Hu [verfasserIn] Chengwei Song [verfasserIn] Xiaogai Hou [verfasserIn]

Format:	E-Artikel
Sprache:	Englisch

Erschienen:	2022

Schlagwörter:	tree peony cpSSRs polymorphic diversity haplotypes

Übergeordnetes Werk:	In: Genes - MDPI AG, 2010, 13(2022), 9, p 1543
Übergeordnetes Werk:	volume:13 ; year:2022 ; number:9, p 1543

Links:	Link aufrufen Link aufrufen Link aufrufen Journal toc

DOI / URN:	10.3390/genes13091543

Katalog-ID:	DOAJ023287330

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allfields	10.3390/genes13091543 doi (DE-627)DOAJ023287330 (DE-599)DOAJac40f1f16c37493199e6c483c8b4be52 DE-627 ger DE-627 rakwb eng QH426-470 Qi Guo verfasserin aut Development and Characterization of Microsatellite Markers Based on the Chloroplast Genome of Tree Peony 2022 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier Tree peony (<i<Paeonia suffruticosa</i< Andr.) is a famous ornamental and medicinal flowering species. However, few high-efficiency chloroplast microsatellite markers have been developed for it to be employed in taxonomic identifications and evaluation of germplasm resources to date. In the present study, a total of 139 cpSSR loci were identified across eleven tree peony plastomes. Dinucleotide repeat SSRs (97.12%) were most abundantly repeated for the AT motif (58.27%), followed by the TA motif (30.94%) and the TC motif (7.91%). Twenty-one primer pairs were developed, and amplification tests were conducted for nine tree peony individuals. Furthermore, 19 cpSSR markers were amplified on 60 tree peony accessions by a capillary electrophoresis test. Of 19 cpSSR markers, 12 showed polymorphism with different alleles ranging from 1.333 to 3.000. The Shannon’s information index and polymorphism information content values ranged from 0.038 to 0.887 (mean 0.432) and 0.032 to 0.589 (mean 0.268), respectively. The diversity levels for twelve loci ranged from 0.016 (at loci cpSSR-8 and cpSSR-26) to 0.543 (at locus cpSSR-15), averaging 0.268 for all loci. A total of 14 haplotypes (23.33%) were detected in the three populations. The haplotypic richness ranged from 0.949 to 1.751, with a mean of 1.233 per population. The genetic relationship suggested by the neighbor-joining-based dendrogram divided the genotypes into two clusters. The Jiangnan population was allotted to Cluster II, and the other two populations were distributed into both branches. These newly developed cpSSRs can be utilized for future breeding programs, population genetics investigations, unraveling the genetic relationships between related species, and germplasm management. tree peony cpSSRs polymorphic diversity haplotypes Genetics Lili Guo verfasserin aut Yuying Li verfasserin aut Haijing Yang verfasserin aut Xiaoliang Hu verfasserin aut Chengwei Song verfasserin aut Xiaogai Hou verfasserin aut In Genes MDPI AG, 2010 13(2022), 9, p 1543 (DE-627)614096537 (DE-600)2527218-4 20734425 nnns volume:13 year:2022 number:9, p 1543 https://doi.org/10.3390/genes13091543 kostenfrei https://doaj.org/article/ac40f1f16c37493199e6c483c8b4be52 kostenfrei https://www.mdpi.com/2073-4425/13/9/1543 kostenfrei https://doaj.org/toc/2073-4425 Journal toc kostenfrei GBV_USEFLAG_A SYSFLAG_A GBV_DOAJ GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_39 GBV_ILN_40 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_213 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_602 GBV_ILN_2014 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 13 2022 9, p 1543
spelling	10.3390/genes13091543 doi (DE-627)DOAJ023287330 (DE-599)DOAJac40f1f16c37493199e6c483c8b4be52 DE-627 ger DE-627 rakwb eng QH426-470 Qi Guo verfasserin aut Development and Characterization of Microsatellite Markers Based on the Chloroplast Genome of Tree Peony 2022 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier Tree peony (<i<Paeonia suffruticosa</i< Andr.) is a famous ornamental and medicinal flowering species. However, few high-efficiency chloroplast microsatellite markers have been developed for it to be employed in taxonomic identifications and evaluation of germplasm resources to date. In the present study, a total of 139 cpSSR loci were identified across eleven tree peony plastomes. Dinucleotide repeat SSRs (97.12%) were most abundantly repeated for the AT motif (58.27%), followed by the TA motif (30.94%) and the TC motif (7.91%). Twenty-one primer pairs were developed, and amplification tests were conducted for nine tree peony individuals. Furthermore, 19 cpSSR markers were amplified on 60 tree peony accessions by a capillary electrophoresis test. Of 19 cpSSR markers, 12 showed polymorphism with different alleles ranging from 1.333 to 3.000. The Shannon’s information index and polymorphism information content values ranged from 0.038 to 0.887 (mean 0.432) and 0.032 to 0.589 (mean 0.268), respectively. The diversity levels for twelve loci ranged from 0.016 (at loci cpSSR-8 and cpSSR-26) to 0.543 (at locus cpSSR-15), averaging 0.268 for all loci. A total of 14 haplotypes (23.33%) were detected in the three populations. The haplotypic richness ranged from 0.949 to 1.751, with a mean of 1.233 per population. The genetic relationship suggested by the neighbor-joining-based dendrogram divided the genotypes into two clusters. The Jiangnan population was allotted to Cluster II, and the other two populations were distributed into both branches. These newly developed cpSSRs can be utilized for future breeding programs, population genetics investigations, unraveling the genetic relationships between related species, and germplasm management. tree peony cpSSRs polymorphic diversity haplotypes Genetics Lili Guo verfasserin aut Yuying Li verfasserin aut Haijing Yang verfasserin aut Xiaoliang Hu verfasserin aut Chengwei Song verfasserin aut Xiaogai Hou verfasserin aut In Genes MDPI AG, 2010 13(2022), 9, p 1543 (DE-627)614096537 (DE-600)2527218-4 20734425 nnns volume:13 year:2022 number:9, p 1543 https://doi.org/10.3390/genes13091543 kostenfrei https://doaj.org/article/ac40f1f16c37493199e6c483c8b4be52 kostenfrei https://www.mdpi.com/2073-4425/13/9/1543 kostenfrei https://doaj.org/toc/2073-4425 Journal toc kostenfrei GBV_USEFLAG_A SYSFLAG_A GBV_DOAJ GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_39 GBV_ILN_40 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_213 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_602 GBV_ILN_2014 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 13 2022 9, p 1543
allfields_unstemmed	10.3390/genes13091543 doi (DE-627)DOAJ023287330 (DE-599)DOAJac40f1f16c37493199e6c483c8b4be52 DE-627 ger DE-627 rakwb eng QH426-470 Qi Guo verfasserin aut Development and Characterization of Microsatellite Markers Based on the Chloroplast Genome of Tree Peony 2022 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier Tree peony (<i<Paeonia suffruticosa</i< Andr.) is a famous ornamental and medicinal flowering species. However, few high-efficiency chloroplast microsatellite markers have been developed for it to be employed in taxonomic identifications and evaluation of germplasm resources to date. In the present study, a total of 139 cpSSR loci were identified across eleven tree peony plastomes. Dinucleotide repeat SSRs (97.12%) were most abundantly repeated for the AT motif (58.27%), followed by the TA motif (30.94%) and the TC motif (7.91%). Twenty-one primer pairs were developed, and amplification tests were conducted for nine tree peony individuals. Furthermore, 19 cpSSR markers were amplified on 60 tree peony accessions by a capillary electrophoresis test. Of 19 cpSSR markers, 12 showed polymorphism with different alleles ranging from 1.333 to 3.000. The Shannon’s information index and polymorphism information content values ranged from 0.038 to 0.887 (mean 0.432) and 0.032 to 0.589 (mean 0.268), respectively. The diversity levels for twelve loci ranged from 0.016 (at loci cpSSR-8 and cpSSR-26) to 0.543 (at locus cpSSR-15), averaging 0.268 for all loci. A total of 14 haplotypes (23.33%) were detected in the three populations. The haplotypic richness ranged from 0.949 to 1.751, with a mean of 1.233 per population. The genetic relationship suggested by the neighbor-joining-based dendrogram divided the genotypes into two clusters. The Jiangnan population was allotted to Cluster II, and the other two populations were distributed into both branches. These newly developed cpSSRs can be utilized for future breeding programs, population genetics investigations, unraveling the genetic relationships between related species, and germplasm management. tree peony cpSSRs polymorphic diversity haplotypes Genetics Lili Guo verfasserin aut Yuying Li verfasserin aut Haijing Yang verfasserin aut Xiaoliang Hu verfasserin aut Chengwei Song verfasserin aut Xiaogai Hou verfasserin aut In Genes MDPI AG, 2010 13(2022), 9, p 1543 (DE-627)614096537 (DE-600)2527218-4 20734425 nnns volume:13 year:2022 number:9, p 1543 https://doi.org/10.3390/genes13091543 kostenfrei https://doaj.org/article/ac40f1f16c37493199e6c483c8b4be52 kostenfrei https://www.mdpi.com/2073-4425/13/9/1543 kostenfrei https://doaj.org/toc/2073-4425 Journal toc kostenfrei GBV_USEFLAG_A SYSFLAG_A GBV_DOAJ GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_39 GBV_ILN_40 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_213 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_602 GBV_ILN_2014 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 13 2022 9, p 1543
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allfieldsSound	10.3390/genes13091543 doi (DE-627)DOAJ023287330 (DE-599)DOAJac40f1f16c37493199e6c483c8b4be52 DE-627 ger DE-627 rakwb eng QH426-470 Qi Guo verfasserin aut Development and Characterization of Microsatellite Markers Based on the Chloroplast Genome of Tree Peony 2022 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier Tree peony (<i<Paeonia suffruticosa</i< Andr.) is a famous ornamental and medicinal flowering species. However, few high-efficiency chloroplast microsatellite markers have been developed for it to be employed in taxonomic identifications and evaluation of germplasm resources to date. In the present study, a total of 139 cpSSR loci were identified across eleven tree peony plastomes. Dinucleotide repeat SSRs (97.12%) were most abundantly repeated for the AT motif (58.27%), followed by the TA motif (30.94%) and the TC motif (7.91%). Twenty-one primer pairs were developed, and amplification tests were conducted for nine tree peony individuals. Furthermore, 19 cpSSR markers were amplified on 60 tree peony accessions by a capillary electrophoresis test. Of 19 cpSSR markers, 12 showed polymorphism with different alleles ranging from 1.333 to 3.000. The Shannon’s information index and polymorphism information content values ranged from 0.038 to 0.887 (mean 0.432) and 0.032 to 0.589 (mean 0.268), respectively. The diversity levels for twelve loci ranged from 0.016 (at loci cpSSR-8 and cpSSR-26) to 0.543 (at locus cpSSR-15), averaging 0.268 for all loci. A total of 14 haplotypes (23.33%) were detected in the three populations. The haplotypic richness ranged from 0.949 to 1.751, with a mean of 1.233 per population. The genetic relationship suggested by the neighbor-joining-based dendrogram divided the genotypes into two clusters. The Jiangnan population was allotted to Cluster II, and the other two populations were distributed into both branches. These newly developed cpSSRs can be utilized for future breeding programs, population genetics investigations, unraveling the genetic relationships between related species, and germplasm management. tree peony cpSSRs polymorphic diversity haplotypes Genetics Lili Guo verfasserin aut Yuying Li verfasserin aut Haijing Yang verfasserin aut Xiaoliang Hu verfasserin aut Chengwei Song verfasserin aut Xiaogai Hou verfasserin aut In Genes MDPI AG, 2010 13(2022), 9, p 1543 (DE-627)614096537 (DE-600)2527218-4 20734425 nnns volume:13 year:2022 number:9, p 1543 https://doi.org/10.3390/genes13091543 kostenfrei https://doaj.org/article/ac40f1f16c37493199e6c483c8b4be52 kostenfrei https://www.mdpi.com/2073-4425/13/9/1543 kostenfrei https://doaj.org/toc/2073-4425 Journal toc kostenfrei GBV_USEFLAG_A SYSFLAG_A GBV_DOAJ GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_39 GBV_ILN_40 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_213 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_602 GBV_ILN_2014 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 13 2022 9, p 1543
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source	In Genes 13(2022), 9, p 1543 volume:13 year:2022 number:9, p 1543
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authorswithroles_txt_mv	Qi Guo @@aut@@ Lili Guo @@aut@@ Yuying Li @@aut@@ Haijing Yang @@aut@@ Xiaoliang Hu @@aut@@ Chengwei Song @@aut@@ Xiaogai Hou @@aut@@
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callnumber-first	Q - Science
author	Qi Guo
spellingShingle	Qi Guo misc QH426-470 misc tree peony misc cpSSRs misc polymorphic misc diversity misc haplotypes misc Genetics Development and Characterization of Microsatellite Markers Based on the Chloroplast Genome of Tree Peony
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topic_title	QH426-470 Development and Characterization of Microsatellite Markers Based on the Chloroplast Genome of Tree Peony tree peony cpSSRs polymorphic diversity haplotypes
topic	misc QH426-470 misc tree peony misc cpSSRs misc polymorphic misc diversity misc haplotypes misc Genetics
topic_unstemmed	misc QH426-470 misc tree peony misc cpSSRs misc polymorphic misc diversity misc haplotypes misc Genetics
topic_browse	misc QH426-470 misc tree peony misc cpSSRs misc polymorphic misc diversity misc haplotypes misc Genetics
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title	Development and Characterization of Microsatellite Markers Based on the Chloroplast Genome of Tree Peony
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title_full	Development and Characterization of Microsatellite Markers Based on the Chloroplast Genome of Tree Peony
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author_browse	Qi Guo Lili Guo Yuying Li Haijing Yang Xiaoliang Hu Chengwei Song Xiaogai Hou
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title_sort	development and characterization of microsatellite markers based on the chloroplast genome of tree peony
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title_auth	Development and Characterization of Microsatellite Markers Based on the Chloroplast Genome of Tree Peony
abstract	Tree peony (<i<Paeonia suffruticosa</i< Andr.) is a famous ornamental and medicinal flowering species. However, few high-efficiency chloroplast microsatellite markers have been developed for it to be employed in taxonomic identifications and evaluation of germplasm resources to date. In the present study, a total of 139 cpSSR loci were identified across eleven tree peony plastomes. Dinucleotide repeat SSRs (97.12%) were most abundantly repeated for the AT motif (58.27%), followed by the TA motif (30.94%) and the TC motif (7.91%). Twenty-one primer pairs were developed, and amplification tests were conducted for nine tree peony individuals. Furthermore, 19 cpSSR markers were amplified on 60 tree peony accessions by a capillary electrophoresis test. Of 19 cpSSR markers, 12 showed polymorphism with different alleles ranging from 1.333 to 3.000. The Shannon’s information index and polymorphism information content values ranged from 0.038 to 0.887 (mean 0.432) and 0.032 to 0.589 (mean 0.268), respectively. The diversity levels for twelve loci ranged from 0.016 (at loci cpSSR-8 and cpSSR-26) to 0.543 (at locus cpSSR-15), averaging 0.268 for all loci. A total of 14 haplotypes (23.33%) were detected in the three populations. The haplotypic richness ranged from 0.949 to 1.751, with a mean of 1.233 per population. The genetic relationship suggested by the neighbor-joining-based dendrogram divided the genotypes into two clusters. The Jiangnan population was allotted to Cluster II, and the other two populations were distributed into both branches. These newly developed cpSSRs can be utilized for future breeding programs, population genetics investigations, unraveling the genetic relationships between related species, and germplasm management.
abstractGer	Tree peony (<i<Paeonia suffruticosa</i< Andr.) is a famous ornamental and medicinal flowering species. However, few high-efficiency chloroplast microsatellite markers have been developed for it to be employed in taxonomic identifications and evaluation of germplasm resources to date. In the present study, a total of 139 cpSSR loci were identified across eleven tree peony plastomes. Dinucleotide repeat SSRs (97.12%) were most abundantly repeated for the AT motif (58.27%), followed by the TA motif (30.94%) and the TC motif (7.91%). Twenty-one primer pairs were developed, and amplification tests were conducted for nine tree peony individuals. Furthermore, 19 cpSSR markers were amplified on 60 tree peony accessions by a capillary electrophoresis test. Of 19 cpSSR markers, 12 showed polymorphism with different alleles ranging from 1.333 to 3.000. The Shannon’s information index and polymorphism information content values ranged from 0.038 to 0.887 (mean 0.432) and 0.032 to 0.589 (mean 0.268), respectively. The diversity levels for twelve loci ranged from 0.016 (at loci cpSSR-8 and cpSSR-26) to 0.543 (at locus cpSSR-15), averaging 0.268 for all loci. A total of 14 haplotypes (23.33%) were detected in the three populations. The haplotypic richness ranged from 0.949 to 1.751, with a mean of 1.233 per population. The genetic relationship suggested by the neighbor-joining-based dendrogram divided the genotypes into two clusters. The Jiangnan population was allotted to Cluster II, and the other two populations were distributed into both branches. These newly developed cpSSRs can be utilized for future breeding programs, population genetics investigations, unraveling the genetic relationships between related species, and germplasm management.
abstract_unstemmed	Tree peony (<i<Paeonia suffruticosa</i< Andr.) is a famous ornamental and medicinal flowering species. However, few high-efficiency chloroplast microsatellite markers have been developed for it to be employed in taxonomic identifications and evaluation of germplasm resources to date. In the present study, a total of 139 cpSSR loci were identified across eleven tree peony plastomes. Dinucleotide repeat SSRs (97.12%) were most abundantly repeated for the AT motif (58.27%), followed by the TA motif (30.94%) and the TC motif (7.91%). Twenty-one primer pairs were developed, and amplification tests were conducted for nine tree peony individuals. Furthermore, 19 cpSSR markers were amplified on 60 tree peony accessions by a capillary electrophoresis test. Of 19 cpSSR markers, 12 showed polymorphism with different alleles ranging from 1.333 to 3.000. The Shannon’s information index and polymorphism information content values ranged from 0.038 to 0.887 (mean 0.432) and 0.032 to 0.589 (mean 0.268), respectively. The diversity levels for twelve loci ranged from 0.016 (at loci cpSSR-8 and cpSSR-26) to 0.543 (at locus cpSSR-15), averaging 0.268 for all loci. A total of 14 haplotypes (23.33%) were detected in the three populations. The haplotypic richness ranged from 0.949 to 1.751, with a mean of 1.233 per population. The genetic relationship suggested by the neighbor-joining-based dendrogram divided the genotypes into two clusters. The Jiangnan population was allotted to Cluster II, and the other two populations were distributed into both branches. These newly developed cpSSRs can be utilized for future breeding programs, population genetics investigations, unraveling the genetic relationships between related species, and germplasm management.
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container_issue	9, p 1543
title_short	Development and Characterization of Microsatellite Markers Based on the Chloroplast Genome of Tree Peony
url	https://doi.org/10.3390/genes13091543 https://doaj.org/article/ac40f1f16c37493199e6c483c8b4be52 https://www.mdpi.com/2073-4425/13/9/1543 https://doaj.org/toc/2073-4425
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author2	Lili Guo Yuying Li Haijing Yang Xiaoliang Hu Chengwei Song Xiaogai Hou
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The diversity levels for twelve loci ranged from 0.016 (at loci cpSSR-8 and cpSSR-26) to 0.543 (at locus cpSSR-15), averaging 0.268 for all loci. A total of 14 haplotypes (23.33%) were detected in the three populations. The haplotypic richness ranged from 0.949 to 1.751, with a mean of 1.233 per population. The genetic relationship suggested by the neighbor-joining-based dendrogram divided the genotypes into two clusters. The Jiangnan population was allotted to Cluster II, and the other two populations were distributed into both branches. 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Development and Characterization of Microsatellite Markers Based on the Chloroplast Genome of Tree Peony

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