Genetic variation of Picea jezoensis populations in South Korea revealed by chloroplast, mitochondrial and nuclear DNA markers

Moriguchi, Yoshinari; Kang, Kyu-Suk; Lee, Kab-Yeon; Lee, Seok‐Woo; Kim, Yong-Yul

doi:10.1007/s10265-008-0210-8

Cited by 15 publications

(7 citation statements)

References 21 publications

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“…In addition, the level of observed heterozygosity was highest in A. poilanei (mean= 0.348 ± 0.083) and lowest in A. formosana (mean = 0.053 ± 0.038). The levels of observed heterozygosity in all species were significantly lower than expected heterozygosity levels, and lower than those observed in other conifers [31,32], suggesting a deficiency of heterozygosity in Amentotaxus species. Generally, widespread species exhibit higher levels of genetic diversity than narrowly distributed species.…”

Section: Resultscontrasting

confidence: 63%

Cross-Species, Amplifiable EST-SSR Markers for Amentotaxus Species Obtained by Next-Generation Sequencing

Chiang

et al. 2016

Molecules

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Amentotaxus, a genus of Taxaceae, is an ancient lineage with six relic and endangered species. Four Amentotaxus species, namely A. argotaenia, A. formosana, A. yunnanensis, and A. poilanei, are considered a species complex because of their morphological similarities. Small populations of these species are allopatrically distributed in Asian forests. However, only a few codominant markers have been developed and applied to study population genetic structure of these endangered species. In this study, we developed and characterized polymorphic expressed sequence tag-simple sequence repeats (EST-SSRs) from the transcriptome of A. formosana. We identified 4955 putative EST-SSRs from 68,281 unigenes as potential molecular markers. Twenty-six EST-SSRs were selected for estimating polymorphism and transferability among Amentotaxus species, of which 23 EST-SSRs were polymorphic within Amentotaxus species. Among these, the number of alleles ranged from 1-4, the polymorphism information content ranged from 0.000-0.692, and the observed and expected heterozygosity were 0.000-1.000 and 0.080-0.740, respectively. Population genetic structure analyses confirmed that A. argotaenia and A. formosana were separate species and A. yunnanensis and A. poilanei were the same species. These novel EST-SSRs can facilitate further population genetic structure research of Amentotaxus species.

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Section: Resultscontrasting

confidence: 63%

Cross-Species, Amplifiable EST-SSR Markers for Amentotaxus Species Obtained by Next-Generation Sequencing

Chiang

et al. 2016

Molecules

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“…Universal primers were defined in conserved regions (exons) and were used to amplify mtDNA regions with conserved microsynteny. Polymorphism in amplified fragment has been revealed with various methods: PCR-RFLP (Boonruangrod et al, 2008;Godbout et al, 2005;San Jose-Maldia et al, 2009;Moriguchi et al, 2009;Naydenov et al, 2007), RFLP-SSR (Burban and Petit, 2003;Godbout et al, 2005;Jaramillo-Correa et al, 2003), mtDNA-SSR (Hosaka and Sanetomo, 2009), the variable number of tandem repeats (VNTR) in minisatelite regions (Bastien et al, 2003;Fievet et al, 2007;Honma et al, 2011;Yoshida et al, 2012), and finally in DNA sequences (Avtzis and Aravanopoulos, 2011;Eckert et al, 2008;Edwards et al, 2005;Goodall-Copestake et al, 2010;Gugger et al, 2011). The choice of the candidate loci was limited and was depending on the taxonomic level addressed by the phylogenetic study.…”

Section: Taxonomymentioning

confidence: 99%

Utility of the Mitochondrial Genome in Plant Taxonomic Studies

Duminil¹,

Besnard²

2020

Methods in Molecular Biology

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Size, structure and sequence content lability of plant mitochondrial genome (mtDNA) across species has sharply limited its use in taxonomic studies. Historically, mtDNA variation has been first investigated with RFLPs, while the development of universal primers then allowed studying sequence polymorphisms within short genomic regions (< 3 kb). The recent advent of NGS technologies now offers new opportunities by greatly facilitating the assembly of longer mtDNA regions, and even full mitogenomes.Phylogenetic works aiming at comparing signals from different genomic compartments (i.e. nucleus, chloroplast and mitochondria) have been developed on a few plant lineages, and have been shown especially relevant in groups with contrasted inheritance of organelle genomes. This chapter first addresses the main characteristics of mtDNA and the application offered in taxonomic studies. It then presents a working sequencing protocol based on NGS data to be routinely used in mtDNA-based phylogenetic studies.

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“…Three subspecies of P. jezoensis have been recognized (Aizawa et al 2009). In Korea, those spruce populations remain yet unclassified (Moriguchi et al 2009).…”

Section: Introductionmentioning

confidence: 99%

“…Gyebang was only recently discovered, and its importance for conservation has just recently been recognized. Moriguchi et al (2009) emphasized the priority of conservation to the Mt. Gyebang population because of its unique and distinct genetic characteristics compared to other disjunct populations in South Korea.…”

Section: Introductionmentioning

confidence: 99%

Climate–growth relationships of relictPicea jezoensisat Mt. Gyebang, South Korea

Jang

Keyes

Running

et al. 2014

Forest Science and Technology

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A study was conducted to evaluate climatic variation at Mt. Gyebang, South Korea, and its influence on the modelled and observed growth of its relict Picea jezoensis population. Using the MT-CLIM and Biome-BGC models, year-to-year meteorological variation and subsequent changes in growing season, primary productivity and water balance were simulated. These were compared with the observed growth of sample P. jezoensis trees at the site. According to weather data and model calculations, the P. jezoensis stand at Mt. Gyebang was exposed to significant climate variations affecting growing season, carbon balance, and water balance. Although the length of growing season showed an increasing trend over time, the observed growth of P. jezoensis was unaffected by the length of growing season. Probably due to the site's shallow soil depths and species' shallow rooting depth, the modelled increase in productivity caused by climate variation was not manifested in an increase in growth of P. jezoensis. These findings imply that the competitiveness of P. jezoensis at this site has declined over time and that an active approach to conservation planning for this species and site is warranted.

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Genetic variation of Picea jezoensis populations in South Korea revealed by chloroplast, mitochondrial and nuclear DNA markers

Cited by 15 publications

References 21 publications

Cross-Species, Amplifiable EST-SSR Markers for Amentotaxus Species Obtained by Next-Generation Sequencing

Cross-Species, Amplifiable EST-SSR Markers for Amentotaxus Species Obtained by Next-Generation Sequencing

Utility of the Mitochondrial Genome in Plant Taxonomic Studies

Climate–growth relationships of relictPicea jezoensisat Mt. Gyebang, South Korea

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