Development and characterization of microsatellite markers from the transcriptome of <i>Firmiana danxiaensis</i> (Malvaceae s.l.)

Fan, Qingxia; Chen, Sufang; Li, Mingwan; He, Shiyang; Zhou, Renchao; Liao, Wenbo

doi:10.3732/apps.1300047

Cited by 18 publications

(16 citation statements)

References 5 publications

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“…DNA extractions and PCR amplifications were performed according to Fan et al. (). Among all tested primers, only 58 primers produced distinct bands within the expected size range (Appendix ), and were thus included in the subsequent analysis.…”

Section: Methods and Resultsmentioning

confidence: 99%

Isolation and identification of EST‐SSR markers in Ixonanthes chinensis (Ixonanthaceae)

et al. 2019

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Premise Ixonanthes (Ixonanthaceae) consists of between three and 19 species, among which I. chinensis and I. khasiana are considered vulnerable. Here, 58 microsatellite markers were developed for further conservation of these two Ixonanthes species. Methods and Results RNA transcripts of I. chinensis were sequenced and assembled into 19,545 unigenes, and 994 simple sequence repeat (SSR) loci were identified from 920 contigs. Based on these, 106 primer pairs were designed, 58 were successfully amplified, and 12 demonstrated polymorphism among five populations. The number of alleles per locus varied from three to 10, and the levels of observed and expected heterozygosity ranged from 0.000 to 1.000 and 0.000 to 0.844, respectively. Further assessment of the transferability of the 58 amplifiable primers reported 30 being successfully cross‐amplified in I. icosandra and three in Erythroxylum sinense. Conclusions These novel SSR markers will be useful for future genetic conservation studies on these Ixonanthes species.

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Section: Methods and Resultsmentioning

confidence: 99%

Isolation and identification of EST‐SSR markers in Ixonanthes chinensis (Ixonanthaceae)

et al. 2019

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“…PCR amplifications were performed according to Fan et al (2013), with an annealing temperature of 52°C. The PCR products were electrophoresed on a 10% polyacrylamide gel and visualized by silver nitrate staining.…”

Section: Methods and Resultsmentioning

confidence: 99%

Development and validation of EST‐SSR markers for Fokienia hodginsii (Cupressaceae)

et al. 2017

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Premise of the study:Fokienia hodginsii (Cupressaceae) is a Tertiary relict evergreen conifer of the monotypic genus Fokienia. Polymorphic microsatellite markers were developed to investigate its genetic diversity and population structure.Methods and Results:RNA transcripts of F. hodginsii were sequenced and de novo assembled into 85,818 unigenes, and 1892 simple sequence repeat (SSR) markers were detected from the unigenes. A total of 273 expressed sequence tag–SSR primer pairs were designed and tested, and 129 successfully amplified. Eleven displayed clear polymorphisms in F. hodginsii. Amplification of these polymorphic primers across three populations of F. hodginsii showed the number of alleles per locus ranged from two to seven, and the expected heterozygosity per locus varied from 0.067 to 0.847. All 11 polymorphic primers amplified in Thuja occidentalis, while 10 amplified in T. standishii, Platycladus orientalis, and Chamaecyparis obtusa.Conclusions:These microsatellite markers will be useful in exploring genetic diversity of F. hodginsii and other conifer trees.

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“…The PCR amplification trials were performed on two individuals from each of the two C. bucklandioides populations according to Fan et al (2013), with appropriate annealing temperature (52–55°C; Table 1). For the 59 primer pairs that showed clear peaks with expected allele size, six individuals from each population were selected to tentatively assess their size polymorphism.…”

Section: Methods and Resultsmentioning

confidence: 99%

Isolation and identification of EST‐SSR markers in Chunia bucklandioides (Hamamelidaceae)

Meng

Fan

et al. 2016

Appl Plant Sci

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Premise of the study:Chunia bucklandioides (Hamamelidaceae), endemic to Hainan, China, is listed as threatened in the IUCN Red List and is now only found on Mt. Diaoluo and Mt. Jianfeng. Thus, microsatellite markers were developed for future conservation genetic studies of this species.Methods and Results:A total of 115 primers were designed on the basis of the transcriptome data of C. bucklandioides. Of them, 59 successfully amplified in C. bucklandioides and polymorphisms were detected in 11; the number of alleles per locus varied from two to five, the observed heterozygosity ranged from 0.000 to 0.941, and the expected heterozygosity ranged from 0.000 to 0.699. A total of 13 primers amplified in Mytilaria laosensis, and five primers amplified in Exbucklandia tonkinensis and E. populnea.Conclusions:The markers screened here provide a basis to assess genetic structure and further establish conservation strategies for C. bucklandioides.

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Development and characterization of microsatellite markers from the transcriptome of Firmiana danxiaensis (Malvaceae s.l.)

Cited by 18 publications

References 5 publications

Isolation and identification of EST‐SSR markers in Ixonanthes chinensis (Ixonanthaceae)

Isolation and identification of EST‐SSR markers in Ixonanthes chinensis (Ixonanthaceae)

Development and validation of EST‐SSR markers for Fokienia hodginsii (Cupressaceae)

Isolation and identification of EST‐SSR markers in Chunia bucklandioides (Hamamelidaceae)

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