Korean freshwater snails of the genus Semisulcospira are widely distributed across East Asia.It has been a very popular nutritional food in Korea,and is an ecologically important water quality indicator because it liv...Korean freshwater snails of the genus Semisulcospira are widely distributed across East Asia.It has been a very popular nutritional food in Korea,and is an ecologically important water quality indicator because it lives only in clean water.However,no microsatellite markers have been generated to study the population genetic diversity of this genus.In the present study,we developed and characterized 18 novel microsatellite loci from Semisulcospira coreana genomic DNA.The microsatellites were isolated using 454 GS-FLX titanium sequencing and 18 markers were used for genotyping in S.coreana.In addition,we also tested the cross-species transferability of the microsatellite markers in four additional Semisulcospira spp.We identified 18 polymorphic loci and the number of alleles per loci,and their polymorphism information content values ranged from 2 to 17 and 0.203 to 0.902,respectively.The observed and expected heterozygosities of the loci ranged from 0.063 to 0.924 and 0.226 to 0.924,respectively.According to the analysis of the cross-species transferability of these markers,four species,S.forticosta,S.gottschei,S.tegulata,and S.libertina,showed a very high transferability(80%–85%).These results show that this set of nuclear markers could be useful for population genetics studies of this species and closely related species.展开更多
As a relatively uncommon orphan tumor with high mortality,biliary tract cancer(BTC)presents an aggressive course and heterogeneous clinical features[1].BTC patients present with advanced manifestations[2].Unfortunatel...As a relatively uncommon orphan tumor with high mortality,biliary tract cancer(BTC)presents an aggressive course and heterogeneous clinical features[1].BTC patients present with advanced manifestations[2].Unfortunately,there has been little progress in the management of BTC.Most patients have inoperable lesions and must receive palliative therapy.Gemcitabine-based chemotherapy has been the only widely accepted first-line treatment for advanced BTC[3].Nevertheless,BTCs are often refractory to chemotherapeutic regimens,leading to a poor clinical outcome in these patients.Recently,with the rapid development of next generation sequencing(NGS)technologies,some actionable mutations such as those in IDH1,FGFR2,BRAF,HER2 genes,and unique molecular subsets in BTCs have been identified[4],and related targeted therapy against actionable mutations has been introduced into clinical practice as a promising therapeutic strategy[5].展开更多
Assessments of phytoplankton diversity in Sabah waters,North Borneo,have primarily relied on morphology-based identification,which has inherent biases and can be time-consuming.Next-Generation Sequencing(NGS)technolog...Assessments of phytoplankton diversity in Sabah waters,North Borneo,have primarily relied on morphology-based identification,which has inherent biases and can be time-consuming.Next-Generation Sequencing(NGS)technology has been shown to be capable of overcoming several limitations of morphology-based methods.Samples were collected from the Sepanggar Bay over the course of the year 2018 in different monsoon seasons.Morphology-based identification and NGS sequencing of the V8–V9 region of the 18S LSU rDNA were used to investigate the diversity of the phytoplankton community.Microscopy and NGS showed complementary results with more diatom taxa detected by microscopy whereas NGS detected smaller and rarer taxa.The harmful algal genera in the study site comprised of Skeletonema,Margalefidinium,Pyrodinium,Takayama,and Alexandrium as detected by NGS.This study showed that that an integrative approach of both morphological and molecular techniques could provide more comprehensive information about the phytoplankton community as the approach captured quantitative variability as well as the diversity of phytoplankton species.展开更多
Cyanobacterial harmful algal blooms are a major threat to freshwater eco-systems globally. To deal with this threat, researches into the cyanobacteria bloom in fresh water lakes and rivers have been carried out all ov...Cyanobacterial harmful algal blooms are a major threat to freshwater eco-systems globally. To deal with this threat, researches into the cyanobacteria bloom in fresh water lakes and rivers have been carried out all over the world. This review presents an overlook of studies on cyanobacteria blooms. Conventional studies mainly focus on investigating the environmental factors influencing the blooms, with their limitation in lack of viewing the microbial community structures. Metagenomics study provides insight into the internal community structure of the cyanobacteria at the blooming, and there are researchers reported that sequence data was a better predictor than environmental factors. This further manifests the significance of the metagenomic study. However, large number of the latter appears to be confined only to present snapshoot of the microbial community diversity and structure. This type of investigation has been valuable and important, whilst an effort to integrate and coordinate the conventional approaches that largely focus on the environmental factors control, and the Metagenomics approaches that reveals the microbial community structure and diversity, implemented through machine learning techniques, for a holistic and more comprehensive insight into the cause and control of Cyanobacteria blooms, appear to be a trend and challenge of the study of this field.展开更多
基金Supported by the National Institute of Fisheries Science of Republic of Korea(Nos.R2019030,R2019033)
文摘Korean freshwater snails of the genus Semisulcospira are widely distributed across East Asia.It has been a very popular nutritional food in Korea,and is an ecologically important water quality indicator because it lives only in clean water.However,no microsatellite markers have been generated to study the population genetic diversity of this genus.In the present study,we developed and characterized 18 novel microsatellite loci from Semisulcospira coreana genomic DNA.The microsatellites were isolated using 454 GS-FLX titanium sequencing and 18 markers were used for genotyping in S.coreana.In addition,we also tested the cross-species transferability of the microsatellite markers in four additional Semisulcospira spp.We identified 18 polymorphic loci and the number of alleles per loci,and their polymorphism information content values ranged from 2 to 17 and 0.203 to 0.902,respectively.The observed and expected heterozygosities of the loci ranged from 0.063 to 0.924 and 0.226 to 0.924,respectively.According to the analysis of the cross-species transferability of these markers,four species,S.forticosta,S.gottschei,S.tegulata,and S.libertina,showed a very high transferability(80%–85%).These results show that this set of nuclear markers could be useful for population genetics studies of this species and closely related species.
基金supported by a grant from Department of Education of Zhejiang Province(Y201636437)
文摘As a relatively uncommon orphan tumor with high mortality,biliary tract cancer(BTC)presents an aggressive course and heterogeneous clinical features[1].BTC patients present with advanced manifestations[2].Unfortunately,there has been little progress in the management of BTC.Most patients have inoperable lesions and must receive palliative therapy.Gemcitabine-based chemotherapy has been the only widely accepted first-line treatment for advanced BTC[3].Nevertheless,BTCs are often refractory to chemotherapeutic regimens,leading to a poor clinical outcome in these patients.Recently,with the rapid development of next generation sequencing(NGS)technologies,some actionable mutations such as those in IDH1,FGFR2,BRAF,HER2 genes,and unique molecular subsets in BTCs have been identified[4],and related targeted therapy against actionable mutations has been introduced into clinical practice as a promising therapeutic strategy[5].
基金The Partial Funding from Sandric Leong through the National University of Singaporethe Fundamental Research Grant Scheme of the Ministry of Education,Malaysia under contract No.FRGS/1/2017/WAB09/UMS/02/1.
文摘Assessments of phytoplankton diversity in Sabah waters,North Borneo,have primarily relied on morphology-based identification,which has inherent biases and can be time-consuming.Next-Generation Sequencing(NGS)technology has been shown to be capable of overcoming several limitations of morphology-based methods.Samples were collected from the Sepanggar Bay over the course of the year 2018 in different monsoon seasons.Morphology-based identification and NGS sequencing of the V8–V9 region of the 18S LSU rDNA were used to investigate the diversity of the phytoplankton community.Microscopy and NGS showed complementary results with more diatom taxa detected by microscopy whereas NGS detected smaller and rarer taxa.The harmful algal genera in the study site comprised of Skeletonema,Margalefidinium,Pyrodinium,Takayama,and Alexandrium as detected by NGS.This study showed that that an integrative approach of both morphological and molecular techniques could provide more comprehensive information about the phytoplankton community as the approach captured quantitative variability as well as the diversity of phytoplankton species.
文摘Cyanobacterial harmful algal blooms are a major threat to freshwater eco-systems globally. To deal with this threat, researches into the cyanobacteria bloom in fresh water lakes and rivers have been carried out all over the world. This review presents an overlook of studies on cyanobacteria blooms. Conventional studies mainly focus on investigating the environmental factors influencing the blooms, with their limitation in lack of viewing the microbial community structures. Metagenomics study provides insight into the internal community structure of the cyanobacteria at the blooming, and there are researchers reported that sequence data was a better predictor than environmental factors. This further manifests the significance of the metagenomic study. However, large number of the latter appears to be confined only to present snapshoot of the microbial community diversity and structure. This type of investigation has been valuable and important, whilst an effort to integrate and coordinate the conventional approaches that largely focus on the environmental factors control, and the Metagenomics approaches that reveals the microbial community structure and diversity, implemented through machine learning techniques, for a holistic and more comprehensive insight into the cause and control of Cyanobacteria blooms, appear to be a trend and challenge of the study of this field.
