Species delimitation and genetic diversity analysis in Salvia with the use of ISSR molecular markers

Safaei, Masoumeh; Sheidai, Masoud; Alijanpoor, Behnaz; Noormohammadi, Zahra

doi:10.1515/botcro-2016-0005

Cited by 19 publications

(12 citation statements)

References 23 publications

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“…So far, there have been few attempts to study the genetic variation in Salvia species using different molecular markers [19][20][21]. However, no studies have been conducted to assess the genotypic differences and relationships in Salvia species using gene-targeted markers, and this is the novelty of the current work.…”

Section: Introductionmentioning

confidence: 99%

Genetic relationships and diversity among wild Salvia accessions revealed by ISSR and SCoT markers

Etminan

Pour-Aboughadareh

Noori

et al. 2018

Biotechnology & Biotechnological Equipment

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In this study, inter-simple sequence repeats (ISSR) and start codon targeted (SCoT) markers were used for genetic diversity and relationship analysis of nine Salvia species. Twenty-one and twenty selected ISSR and SCoT primers amplified 350 and 329 loci, respectively, of which all were polymorphic. The obtained average polymorphism information content (ISSR, 0.38; SCoT, 0.40), average band informativeness (ISSR, 16.67; SCoT, 16.45) and resolving power (ISSR, 9.75; SCoT, 12.52) revealed high genetic diversity prevailing among Salvia accessions. Considering the ISSR and SCoT data, the species with a basic chromosome number of x = 8 showed higher values of the percentage polymorphism loci (PPL), the number of observed alleles (Na) and Shannon index (I) than the other species. The partition of clusters in the neighbour-joining dendrogram based on ISSR, SCoT and combined data was similar and grouped all individuals into four clusters. However, the dendrogram generated based on SCoT separated the individuals into sub-clusters in accordance with their species and section. The Mantel test revealed a similar polymorphism distribution pattern between ISSR and SCoT techniques, the correlation coefficient (r) was 0.83, and the results showed that both techniques were effective to assess the genetic diversity. Our results indicated that SCoT markers can be used as a reliable and informative technique for evaluation of genetic diversity and relationships among Salvia species.

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Section: Introductionmentioning

confidence: 99%

Genetic relationships and diversity among wild Salvia accessions revealed by ISSR and SCoT markers

Etminan

Pour-Aboughadareh

Noori

et al. 2018

Biotechnology & Biotechnological Equipment

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“…Different clustering and ordination methods like, UPGMA (Unweighted paired group using average), and Ward (Minimum spherical variance) clustering as well as principal coordinate analysis (PCoA) were used for grouping of the species. To identify the most variable morphological characters, Principal components analysis (PCA), was used (PODANI, 2000;SAFAEI et al, 2016).…”

Section: Data Analysis Morphological Analysismentioning

confidence: 99%

“…(FREELAND et al, 2011). ISSRs have been successfully used to estimate population genetic diversity and structure in different plant species (SHEIDAI et al, 2014a;KOOHDAR et al, 2015;MINAEIFAR et al, 2016;MOSAFERI et al, 2015), and to delimit the species (SAFAEI et al, 2016), and identify infra-specific taxonomic forms (SHEIDAI et al, 2014b).…”

Section: Introductionmentioning

confidence: 99%

Biosystematic study and population genetic analysis in Lamium amplexicaule L. (Lamioideae, Lamiaceae)

et al. 2018

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L. amplexicaule L. grows in different regions of Iran and forms several populations that can be invasive in some area. Morphological and genetic variation of L. amplexicaule in Iran was studied to evaluate the differentiation among three presumed varieties within this species. Morphometric study was accompanied by the analysis of ISSR and chloroplast genome (psbA-trnH). Results of the molecular methods show that L. amplexicaule var. bornmuelleri Mennema. does not form any genetically distinct group. Genetic study of 103 plant specimens of 13 different populations using ISSR molecular marker revealed a high degree of within-population (67%) and among (33%) populations genetic diversity. AMOVA and Gst analyses produced a significant difference. Nm estimation revealed certain degree of gene flow/shared alleles between these populations, indicating that L. amplexicaule is predominantly an out-crossing species in Iran. Mantel test produced significant correlation between genetic distance and geographical distance of the studied populations (r = 0.097, P = 0.04). STRUCTURE plot identified two main gene pools for this species in Iran.

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“…Plant species delimitation and interspecific genetic diversity are two important areas of investigation in phylogenetic systematics, evolution, biogeography and biodiversity studies. Data obtained can help to understand the patterns and mechanisms of speciation and hybridisation (Minaeifar et al 2016, Safaei et al 2016. They can reveal the pattern of gene flow between closely related phylogenetic species versus isolation by distance and identify the evolutionary process by which new biological species arise (Freeland et al 2011.…”

Section: Introductionmentioning

confidence: 99%

“…These include both neutral multilocus markers (e.g., SSRs (simple sequence repeats), ISSRs (inter-simple sequence repeats) and AFLPs (amplified fragments length polymorphism)), etc. as well as DNA sequences (e.g., ITS (internal transcribed sequences) of ribosomal DNA and chloroplast DNA) (see for example, Sheidai et al 2012, Koohdar et al 2015, Mosaferi et al 2015, Minaeifar et al 2016, Safaei et al 2016.…”

Section: Introductionmentioning

confidence: 99%

Species delimitation in Geranium sect. Batrachioidea: morphological and molecular

Bozchaloyi

Sheidai

Keshavarzi

et al. 2017

Acta Botanica Hungarica

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Geranium subg. Robertium (Geraniaceae) comprises eight sections, of which sect. Batrachioidea contains four species centred in Eurasia, Mediterranean region and the Himalaya Mountains. Three species of Geranium pusillum, G. molle and G. pyrenaicum occur in Iran show some degree of morphological overlaps that make the species delimitation difficult. Moreover, hybrids are known to be formed between these species elsewhere. Till present time, there has been no detailed information available on molecular phylogeny and genetic structure of these species in the country. Therefore, the present study was conducted with the aim to investigate species delimitation by both morphological and molecular data and to reveal genetic diversity and population structure in these three Geranium species. For this study, 216 randomly collected plants from 30 geographical populations in three Geranium species were used. We encountered extensive within species genetic and morphological diversity. ISSR molecular markers could not delimit the studied species. STRUCTURE analysis revealed the occurrence gene flow between these species. The Mantel test showed no correlation between genetic distance and geographical distance of the populations studied. Statistical analysis showed no significant difference between ITS and rbcL sequences and phylogenetic tree was constructed based on combined data set which separated outgroups from the studied species. Genetic affinity of the studied species has been discussed.

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Species delimitation and genetic diversity analysis in Salvia with the use of ISSR molecular markers

Cited by 19 publications

References 23 publications

Genetic relationships and diversity among wild Salvia accessions revealed by ISSR and SCoT markers

Genetic relationships and diversity among wild Salvia accessions revealed by ISSR and SCoT markers

Biosystematic study and population genetic analysis in Lamium amplexicaule L. (Lamioideae, Lamiaceae)

Species delimitation in Geranium sect. Batrachioidea: morphological and molecular

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