Dataset Information

Evaluation of six regions for their potential as DNA barcodes in epiphyllous liverworts from Thailand.

ABSTRACT: Premise of the Study:Studies on the diversity of epiphyllous bryophytes have been limited because of minute and incomplete specimens and a lack of taxonomic expertise. The recent development of the DNA barcoding approach has allowed taxon identification and species discovery of many obscure groups of organisms. Methods:With DNA extractions from 99 samples of 16 species, we compared the efficiencies of six DNA markers (rbcL, matK, trnL-F, psbA, ITS1, and ITS2) in their ability to amplify, using a standard set of primers, as well as their discriminatory power, using distance-based and tree-based approaches with nucleotide data. Results:The amplification success was relatively high (70-90%) with all of the markers, except for matK, which yielded no success. The barcoding gap, as calculated from the difference between inter- and intraspecific genetic distances, was the highest in ITS2, whereas the highest numbers of monophyletic groups were found with ITS2 and rbcL. Discussion:rbcL should be used as a main barcoding marker with the addition of ITS2 for epiphyllous species. The development of DNA barcoding as a tool for quantifying species diversity will provide a rapid and reliable identification tool for epiphyllous bryophytes.

SUBMITTER: Yodphaka S

PROVIDER: S-EPMC6110246 | biostudies-literature | 2018 Aug

REPOSITORIES: biostudies-literature

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Evaluation of six regions for their potential as DNA barcodes in epiphyllous liverworts from Thailand.

Yodphaka Sorrasak S Boonpragob Kansri K Lumbsch H Thorsten HT Kraichak Ekaphan E

Applications in plant sciences 20180820 8

<h4>Premise of the study</h4>Studies on the diversity of epiphyllous bryophytes have been limited because of minute and incomplete specimens and a lack of taxonomic expertise. The recent development of the DNA barcoding approach has allowed taxon identification and species discovery of many obscure groups of organisms.<h4>Methods</h4>With DNA extractions from 99 samples of 16 species, we compared the efficiencies of six DNA markers (<i>rbcL</i>, <i>matK</i>, <i>trnL-F</i>, <i>psbA</i>, ITS1, and ...[more]

PMID: 30214837

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Project description:BackgroundBlackflies are an important medical and veterinary group of small blood-sucking insects. Ninety-three blackfly species have been reported in Thailand. However, information on their biodiversity and population dynamics in each region is lacking. The main aim of this study was to assess the regional biodiversity, seasonal abundance and distribution of blackflies in six eco-geographically different regions in the country.MethodsBlackfly larvae and pupae were sampled monthly from 58 sites between May 2011 and April 2013. Diversity parameters, seasonal abundance, regional distribution and frequency of species occurrence in stream sites were analyzed.ResultsA total of 19,456 mature larvae representing 57 species, and belonging to six subgenera in the genus Simulium Latreille (s.l.), were found. The five predominant taxa were S. fenestratum (8.6%), the S. asakoae complex (8.3%), S. nakhonense (7.5%), the S. siamense complex (7.4%) and the S. doipuiense complex (6.7%). The most frequent taxa at all sites were the S. asakoae complex (84.5%), followed by S. fenestratum (82.8%), the S. siamense complex (75.9%), S. decuplum (60.3%), S. nakhonense (58.6%) and the S. tani complex (48.3%). The richness of regional species was highest (40 species) in the north and predominated in the cold season. However, blackflies in the south predominated during the hot season. The highest numbers of blackflies collected from central, northeastern, eastern and western regions of the country were observed in the rainy season. Overall, the mean number of blackflies collected across the six regions during the rainy and cold season had no statistically significant difference, but it differed significantly in the hot season.ConclusionsBlackflies in Thailand were surveyed in all three seasons across six geographical regions. These findings demonstrated that blackfly communities at each stream site varied with seasonality, and the regional relative abundance of blackflies differed markedly in the hot season. It was also found that the occurrence and distribution of blackflies in each region were associated strongly with elevation.

Dataset Information

Evaluation of six regions for their potential as DNA barcodes in epiphyllous liverworts from Thailand.

Publications

Evaluation of six regions for their potential as DNA barcodes in epiphyllous liverworts from Thailand.

Similar Datasets

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