Insight into the Peopling of Mainland Southeast Asia from Thai Population Genetic Structure

There is considerable ethno-linguistic and genetic variation among human populations in Asia, although tracing the origins of this diversity is complicated by migration events. Thailand is at the center of Mainland Southeast Asia (MSEA), a region within Asia that has not been extensively studied. Genetic substructure may exist in the Thai population, since waves of migration from southern China throughout its recent history may have contributed to substantial gene flow. Autosomal SNP data were collated for 438,503 markers from 992 Thai individuals. Using the available self-reported regional origin, four Thai subpopulations genetically distinct from each other and from other Asian populations were resolved by Neighbor-Joining analysis using a 41,569 marker subset. Using an independent Principal Components-based unsupervised clustering approach, four major MSEA subpopulations were resolved in which regional bias was apparent. A major ancestry component was common to these MSEA subpopulations and distinguishes them from other Asian subpopulations. On the other hand, these MSEA subpopulations were admixed with other ancestries, in particular one shared with Chinese. Subpopulation clustering using only Thai individuals and the complete marker set resolved four subpopulations, which are distributed differently across Thailand. A Sino-Thai subpopulation was concentrated in the Central region of Thailand, although this constituted a minority in an otherwise diverse region. Among the most highly differentiated markers which distinguish the Thai subpopulations, several map to regions known to affect phenotypic traits such as skin pigmentation and susceptibility to common diseases. The subpopulation patterns elucidated have important implications for evolutionary and medical genetics. The subpopulation structure within Thailand may reflect the contributions of different migrants throughout the history of MSEA. The information will also be important for genetic association studies to account for population-structure confounding effects.     

Educating health-care professionals about genetics and genomics

To biomedical researchers, this is the 'genome era'. Advances in genetics and genomics such as the sequence of the human genome, the human haplotype map, open access databases, cheaper genotyping and chemical genomics have already transformed basic and translational biomedical research. However, for most clinicians, the genome era has not yet arrived. For genomics to have an effect on clinical practice that is comparable to its impact on research will require advances in the genomic literacy of health-care providers. Here we describe the knowledge, skills and attitudes that genomic medicine will require, and approaches to integrate them into the health-care community.     

Genetic Heterogeneity of the Blue Swimming Crab (Portunus pelagicus) in Thailand Determined by AFLP Analysis

Genetic diversity and population differentiation of the blue swimming crab (Portunus pelagicus) in Thailand, originating from Ranong and Krabi located in the Andaman Sea (west) and Chanthaburi, Prachuap Khiri Khan, and Suratthani located in the Gulf of Thailand (east), were examined by AFLP analysis. High genetic diversity of P. pelagicus in Thai waters was found (N=72). The four primer combinations generated 227 AFLP fragments, and the percentage of polymorphic bands in each geographic sample was 66.19-94.38%. The mean genetic distance between pairs of samples was 0.1151-0.2440. Geographic heterogeneity analyses using the exact test and FST-based statistics between all pairwise comparisons were statistically significant (P<0.01), indicating a fine-scale level of intraspecific population differentiation of Thai P. pelagicus. The estimated number of migrants per generation (Nem) was 0.26-0.76, suggesting restricted gene flow levels of P. pelagicus in Thai waters.     

Effects of a recent founding event and intrinsic population dynamics on genetic diversity in an ungulate population

Maintenance of genetic diversity has recently become a management goal for a number of species, due to its importance for present and future population viability. Genetic drift, primarily through differential reproductive success and inbreeding, can accelerate the loss of genetic diversity in recently recovered populations. We attempt to quantify the consequences of these factors on the genetic diversity contained in a small, recently founded wood bison (Bison bison athabascae) population by examining the genetic variation in this conservation herd, the calves born therein, and its large source population. The Hook Lake Wood Bison Recovery Project was initiated to found a disease-free herd of wood bison containing a representative amount of the genetic diversity present in the Wood Buffalo National Park metapopulation. Levels of diversity in the Hook Lake Wood Bison Recovery Project founders are higher than in previous salvage attempts. To examine the effects of differential reproductive success on this population, we monitored parentage of the calves born in the Hook Lake Wood Bison Recovery Project for 3 years since the founders reached sexual maturity. Two of the male founders sired over 90% of the offspring born in this population, which has led to a reduction in diversity in their calves. Monitoring of reproductive success, and incorporation of selective breeding strategies will be required to reduce the rate at which genetic diversity is lost from this small, isolated population. These steps should occur in other recovery projects, particularly when a small number of individuals are capable of dominating reproduction.     

Natural products as starting points for future anti-malarial therapies: going back to our roots?

Background

Population movements along the Thailand-Cambodia border, particularly among highly mobile and hard-to-access migrant groups from Cambodia and Myanmar, are assumed to play a key role in the spread of artemisinin resistance. Data on treatment-seeking behaviours, knowledge and perceptions about malaria, and use of preventive measures is lacking as characteristics of this population prevent them from being represented in routine surveillance and the lack of a sampling frame makes reliable surveys challenging.

Methods

A survey of migrant populations from Cambodia and Myanmar was implemented in five selected rural locations in Thailand along the Thai-Cambodian border using respondent driven sampling (RDS) to determine demographic characteristics of the population, migratory patterns, knowledge about malaria, and health-care -seeking behaviours.

Results

The majority of migrants from Myanmar are long-term residents (98%) with no plans to move back to Myanmar, understand spoken Thai (77%) and can therefore benefit from health messages in Thai, have Thai health insurance (99%) and accessed public health services in Thailand (63%) for their last illness. In comparison, the majority of Cambodian migrants are short-term (72%). Of the short-term Cambodian migrants, 92% work in agriculture, 18% speak Thai, 3.4% have Thai health insurance, and the majority returned to Cambodia for treatment (45%), self-treated (11%), or did not seek treatment for their last illness (27%).

Conclusion

Most highly mobile migrants along the Thai-Cambodia border are not accessing health messages or health treatment in Thailand, increasing their risk of malaria and facilitating the spread of potentially resistant Plasmodium falciparum as they return to Cambodia to seek treatment. Reaching out to highly mobile migrants with health messaging they can understand and malaria diagnosis and treatment services they can access is imperative in the effort to contain the spread of artemisinin-resistant P. falciparum.     

HLA class I,KIR, and genome-wide SNP diversity in the RV144 Thai phase 3 HIV vaccine clinical trial

RV144 is the first phase 3 HIV vaccine clinical trial to demonstrate efficacy. This study consisted of more than 8,000 individuals in each arm of the trial, representing the four major regions of Thailand. Human leukocyte antigen (HLA) class I and killer cell immunoglobulin-like receptor (KIR) genes, as well as 96 genome-wide ancestry informative markers (AIMs) were genotyped in 450 placebo HIV-1-uninfected individuals to identify the immunogenetic diversity and population structure of this cohort. High-resolution genotyping identified the common HLA alleles as A*02:03, A*02:07, A*11:01, A*24:02, A*24:07, A*33:03, B*13:01, B*15:02, B*18:01, B*40:01, B*44:03, B*46:01, B*58:01, C*01:02, C*03:02, C*03:04, C*07:01, C*07:02, C*07:04, and C*08:01. The most frequent three-loci haplotype was B*46:01-C*01:02-A*02:07. Framework genes KIR2DL4, 3DL2, and 3DL3 were present in all samples, and KIR2DL1, 2DL3, 3DL1, 2DS4, and 2DP1 occurred at frequencies greater than 90 %. The combined HLA and KIR profile suggests admixture with neighboring Asian populations. Principal component and correspondence analyses comparing the RV144 samples to the phase 3 International HapMap Project (HapMap3) populations using AIMs corroborated these findings. Structure analyses identified a distinct profile in the Thai population that did not match the Asian or other HapMap3 samples. This shows genetic variability unique to Thais in RV144, making it essential to take into account population stratification while performing genetic association studies. The overall analyses from all three genetic markers indicate that the RV144 samples are representative of the Thai population. This will inform subsequent host genetic analyses in the RV144 cohort and provide insight for future genetic association studies in the Thai population.     

Phylogeography of the Asian rice gall midge <Emphasis Type="Italic">Orseolia oryzae</Emphasis> (Wood Mason) (Diptera: Cecidomyiidae) in Thailand

The Asian rice gall midge (RGM) Orseolia oryzae (Wood Mason) (Diptera: Cecidomyiidae) is a major pest of rice, leading to yield losses in Thailand and many Asian countries. Despite an increasing number of reported midge outbreaks and the presence of many susceptible rice varieties, only a few studies have focused on the genetic variation of the midges. Therefore, we analyzed the phylogeography among Thai RGM populations covering north, northeast and central Thailand. Two mitochondrial DNA genes, cytochrome C oxidase I (COI) and 12S, and a non-coding repeat region (RR) situated just before COI were amplified. Overall, the haplotype diversity for COI and 12S genes of the Thai population was high, but the nucleotide diversity was quite low. Altogether, the phylogenetic tree and pairwise F _st values indicated that Thai RGM populations recently expanded and were homogeneously distributed throughout the country, except for some populations in the north, which most likely became recently isolated from the main population. Two non-coding repeat motifs, that were recently observed in the mitogenome of RGM in India, were absent in Thai populations and replaced by an 89 bp non-coding sequence. Tandem nucleotide repeats of the sequence TA were also observed. The repeat copy number varied from 2 to 11 and was not correlated with geographical repartition of the midge. Finally, COI barcoding divergence between Indian and Thai populations was high (6.3% in average), giving insights into the potential existence of an RGM species complex in Asia.     

Mitochondrial Diversity and Phylogeographic Patterns of Gekko gecko(Squamata: Gekkonidae) in Thailand

The Tokay Gecko, Gekko gecko(Linnaeus, 1758) is widely distributed in Asia and there have been concerns regarding locally decreasing populations due to overexploitation for traditional Chinese medicine. Previous studies of the genetic relationships of G. gecko populations included few populations from Thailand. Here we investigated the phylogeographic patterns of G. gecko from different regions in Thailand using mitochondrial cytochrome b sequences. Phylogenetic analyses revealed two lineages: one(Lineage A) comprising populations from Laos, Vietnam, and Thailand; and a second(Lineage B) comprising three genetically distinct groups within Thailand alone. Some Thai populations were found to have both lineages represented within them. Highly significant genetic differentiation(FST) showed geographic population structuring in Lineage B, indicating limited gene flow among groups in Thailand. Although G. gecko has a wide distribution and is well adapted to human habitation, the observed genetic structure could potentially be explained by geographic barriers such as mountain ranges. In Lineage A, our study provided primary phylogeographic evidence for lineage mixture that might be a result of human-mediated transport. Future research should include more extensive sampling across the geographic distribution of G. gecko and a landscape genetics approach could be applied for conservation planning.     

Population genetic structure and demographic history of the black fly vector,Simulium nodosum in Thailand

An understanding of the genetic structure and diversity of vector species is crucial for effective control and management. In this study, mitochondrial DNA sequences were used to examine the genetic structure, diversity and demographic history of a black fly vector, Simulium nodosum Puri (Diptera: Simuliidae), in Thailand. A total of 145 sequences were obtained from 10 sampling locations collected across geographical ranges in the country. Low genetic diversity was found in populations of S. nodosum that could be explained by the recent population history of this species. Demographic history analysis revealed a signature of demographic expansion dating back to only 2600–5200 years ago. Recent population expansion in S. nodosum possibly followed an increase in agriculture that enabled its hosts', humans and domestic animals, densities to increase. Alternatively, the Thai populations could be a derivative of an older expansion event in the more northern populations. Mitochondrial DNA genealogy revealed no genetically divergent lineages, which agrees with the previous cytogenetic study. Genetic structure analyses found that only 27% of the pairwise comparisons were significantly different. The most likely explanation for the pattern of genetic structuring is the effect of genetic drift because of recent colonization.     

10-year experience with the Thai national LCI database: case study of “refinery products”

Purpose

Due to various environmental pressures such as climate change and scarcity of natural resources, as well as nontariff barriers from trade partners, Thailand has established the Thai national life cycle inventory (LCI) database in 2006. In the 1st phase (2006–2007), three working groups were developed for natural gas, refinery, and petrochemical products. Another seven working groups were established in the 2nd phase (2007–2010) for ferrous and non-ferrous metals, utilities and transportation, construction materials, agricultural materials and products, basic chemicals, recycling and waste management, and others. In the 3rd phase (2010 to present), expansion of the number of data sets from the previous phases has been carried out. The purpose of this paper is to present the experiences on national database development in emerging countries with the example of Thailand on both strategic and technical levels using refinery products as the case study.

Methods

Data sets were developed according to ISO 14044:2006. The LCI data were managed and archived at the central facility known as the “central LCI database”. The Life Cycle Assessment lab (LCA lab) at MTEC, NSTDA, has been responsible for the central LCI database management. From 2008 to 2010, the “Thai national LCI database and its applications” project was granted a 3-year funding of over 50 million THB, and was operated under supervision of a steering committee set up by the Ministry of Industry (MoI). For this case study, to illustrate the development process, primary data of the refinery products were collected by Petroleum Institute of Thailand in the year 2005 from seven refineries covering more than 70 % of the production in the country. Attributional modelling has been used, with energy content as an allocation criterion.

Results and discussion

During the initial phase of the “Thai National LCI Database Development Project”, two key barriers have been faced. One was the lack of awareness from stakeholders as LCI and LCA were quite new tools for most people in Thailand. This problem was tackled by collaborating with the right strategic partners to drive the LCI national project and educating stakeholders with the training supports from Japan. The other hindrance was the lack of expertise of local experts on LCA. It took several years to continually build the capacity through seminars and workshops in Thailand and Japan, including “on the job training” on some pilot projects. As of May 2016, there were more than 700 data sets in the Thai national LCI database, considering only the data that MTEC acted as the project commissioner. However, only 515 data were certified as the national database. The other 211 data were qualified merely as the data from pilot projects. More details of the database list and how to access the data can be viewed in Thai language at the URL: http://www.thailcidatabase.net. Because the Thai national LCI data were mostly primary data from a core set of products for the Thai economy with a very high representativeness (>60 %) of the actual Thai productions, the data have been treated carefully. Only C-to-G data and G-to-G data from literature were allowed to disclose to Thai delegates with some signing agreements. However, G-to-G data from the actual Thai productions were sometimes provided, only with the signing confidentiality contracts. For refinery products, seven average data sets were established as national LCI data sets, i.e. liquefied petroleum gas, sulfur, gasoline, kerosene/jet oil, naphtha, fuel oil and diesel, with the year 2005 as the reference year. The data representativeness was very high covering more than 70 % of the production in Thailand. Due to the positive feedback and engagement from industries, several LCI projects have been started after this initial phase. The national LCI data sets have been used in various national applications and policies such as sustainable biofuels, government green public procurement, green GDP, Thai carbon footprint, etc. However, some relevant limitations of the Thai LCI database were listed as follows. Similar to most surveyed national LCI database worldwide, the climate change impact category has been chosen as the main focus for these data sets. Nevertheless, there is a more growing demand to use the data for other applications. As a result, more data sets that cover other impact categories will be required in the near future. Regarding the nomenclature and format, the Thai data sets were technically unique and not fully compatible with any other database.

Conclusions

The Thai national LCI database could be considered as the pioneer case for other countries in the South East Asia region. Thailand has further progressed in its LCI database development. Since 2009, the Thai national LCI database has been used as one of the key infrastructures of Thailand to support public policies and applications related to green growth. Many Thai stakeholders are well aware on LCI, LCA, and EcoDesign. Expertise of local experts has been increasingly improved. However, there are still more challenges to be faced to harvest the value of the Thai database in its full potential for better decision making in industry and policy, and for better positioning of Thai products on the global markets. From our experience, the following issues could be identified as “lessons learned”. At the onset of the project, it was crucial to get in expert advices from LCA-experienced countries to establish local expertise. Also, industry experts from abroad could help in clarifying the concept and addressing confidentiality concerns, as well as building awareness on LCA to Thai industries. Searching for some supporting programmes for capacity building, such as the GPP from Japan in our case, could provide great benefits to any emerging economies for national LCI initiatives. However, sustaining the trained human resources was also vital. Continual funding supports for LCI development and its applications were necessary to keep the momentum of active people in the field. Multiplying effect of the LCI knowledge to related organizations in the three main groups, i.e. government, academia, and industries, could help sustain the knowhow. Also, effective knowledge management through media such as books, guidelines, training courses, etc. would relief the turnover problem of trained staffs. Although it took a lot of time to develop local expertise, it was an essential step to have sufficient number of local experts to sustain the national database project. Moreover, a strong network of experts and researchers locally and internationally also strengthened the technical capacity to deal with any challenges during the project implementation. Furthermore, collaboration with the right strategic partners to drive the project was also very important in order to elevate it to the national level. It should be noted for any emerging economies aiming to initiate national LCI, the work plan for LCI database development (including the database management system) and its applications should be well balanced. Also, a well-designed database management system would enhance the database usage in the long run, especially when dealing with various impact categories like those in PEF.

     

Volunteering,Dana, and the Cultivation of ‘Good People’ in Thailand

The article explores a popular volunteer movement in Thailand and its connection to Buddhist morality and contemporary Thai politics. The article argues that volunteering in Thailand is often conceived of as a gift in various ways: as a form of dana or selfless giving; a gift from ‘good people’ to those defined as ‘in need’ in society and a gift to the Thai nation as a whole. Indeed, when volunteering is said to be a gift to the Thai nation, it is not necessarily because of its ability to redistribute resources, but because of its perceived ability to cultivate moral values and ‘good people’ for the Thai nation. The paper explores the implications that stem from presenting volunteering as a gift, with a strong emphasis on morality and ‘good people’, and how this popular discourse on volunteering may contribute to the maintenance of political status quo in Thailand, particularly in the context of the ongoing political struggles in recent years.     

中国西双版纳傣族与泰国泰族民间植物命名方法与土著名字的相似性探讨

通过对中国西双版纳与泰国都有分布和栽培的641种植物的傣、泰土著名字相似性比较,发现这两个民族具有基本相同的民间植物命名的"双名法"。西双版纳傣族与泰国的兰纳地区、北—东北部和其它地区泰族的植物土著名相同、相似的分别占0.69、0.57和0.37,主要包括药用植物在内的经济植物和与南传上座部佛教文化密切相关的植物。其主要成因包括他们的语言文字、宗教信仰、生活习俗等的傣、泰历史渊源及其所具有的传统文化密切程度相关。其中,兰纳地区地处泰国北部,它不仅邻近西双版纳,而且在历史上,它们曾经同属于"兰纳王国",两地的边界曾是"犬牙交错",成为"曼比勐农"(兄弟之邦)。这样,使包括土著名字在内的佛教植物、野生植物和栽培植物等的交流比泰国其它地区更加密切,相似性便最高。西双版纳傣族和兰纳泰族被视为尚存的标准"Tai"人区。因此,该研究对于中国Dai、泰国Thai、缅甸Siam和老挝Laos等国家民族的科学文化交流及其植物资源的利用和保护等具有重要的意义。     

Use of Medicinal Plants Among Thai Ethnic Groups: A Comparison

Economic Botany - Use of Medicinal Plants Among Thai Ethnic Groups: A Comparison. Thailand has a large rural population that uses traditional medicinal plants extensively. The country is also the...     

First middle Miocene sivaladapid primate from Thailand

Sivaladapids are a group of Asian adapiform primates that were previously documented from deposits dating to the middle Eocene through the late Miocene in Pakistan, India, Myanmar, Thailand, and China. The group is notable for the persistence of three genera, Sivaladapis, Indraloris and Sinoadapis, into the late Miocene. In Thailand, sivaladapids were previously documented only from late Eocene deposits of the Krabi mine. Here, we describe the first Southeast Asian Miocene sivaladapid, Siamoadapis maemohensis gen. et sp. nov. from a 13.3 to 13.1 Ma lignite layer from the Mae Moh coal mine, Thailand. It differs from other Miocene sivaladapids by its distinctly smaller size and in features of the dentition. This discovery enhances the paleoecological diversity of the middle Miocene primate fauna of Thailand, which now includes sivaladapids, a loris, tarsiids, and hominoids. In this respect, the fossil primate community from the middle Miocene of Thailand is similar in its composition to roughly contemporaneous assemblages from southern China, India, and Pakistan. However, the Thai fossils represent a distinct genus, suggesting a different biogeographic province with distinctive paleoenvironments.     

Comparative genomics inferred two distinct populations of piscine pathogenic Streptococcus agalactiae,serotype Ia ST7 and serotype III ST283, in Thailand and Vietnam

The genomes of Streptococcus agalactiae (group B streptococcus; GBS) collected from diseased fish in Thailand and Vietnam over a nine-year period (2008–2016) were sequenced and compared (n = 21). Based on capsular serotype and multilocus sequence typing (MLST), GBS isolates are divided into 2 groups comprised of i) serotype Ia; sequence type (ST)7 and ii) serotype III; ST283. Population structure inferred by core genome (cg)MLST and Bayesian clustering analysis also strongly indicated distribution of two GBS populations in both Thailand and Vietnam. Deep phylogenetic analysis implied by CRISPR array's spacer diversity was able to cluster GBS isolates according to their temporal and geographic origins, though ST7 has varying CRISPR1-spacer profiles when compared to ST283 strains. Based on overall genotypic features, Thai ST283 strains were closely related to the Singaporean ST283 strain causing foodborne illness in humans in 2015, thus, signifying zoonotic potential of this GBS population in the country.     

Recurrent gene amplification and soft selective sweeps during evolution of multidrug resistance in malaria parasites

When selection is strong and beneficial alleles have a single origin, local reductions in genetic diversity are expected. However, when beneficial alleles have multiple origins or were segregating in the population prior to a change in selection regime, the impact on genetic diversity may be less clear. We describe an example of such a "soft" selective sweep in the malaria parasite Plasmodium falciparum that involves adaptive genome rearrangements. Amplification in copy number of genome regions containing the pfmdr1 gene on chromosome 5 confer resistance to mefloquine and spread rapidly in the 1990s. Using flanking microsatellite data and real-time polymerase chain reaction determination of copy number, we show that 5-15 independent amplification events have occurred in parasites on the Thailand/Burma border. The amplified genome regions (amplicons) range in size from 14.7 to 49 kb and contain 2-11 genes, with 2-4 copies arranged in tandem. To examine the impact of drug selection on flanking variation, we genotyped 48 microsatellites on chromosome 5 in 326 parasites from a single Thai location. Diversity was reduced in a 170- to 250-kb (10-15 cM) region of chromosomes containing multiple copies of pfmdr1, consistent with hitchhiking resulting from the rapid recent spread of selected chromosomes. However, diversity immediately flanking pfmdr1 is reduced by only 42% on chromosomes bearing multiple amplicons relative to chromosomes carrying a single copy. We highlight 2 features of these results: 1) All amplicon break points occur in monomeric A/T tracts (9-45 bp). Given the abundance of these tracts in P. falciparum, we expect that duplications will occur frequently at multiple genomic locations and have been underestimated as drivers of phenotypic evolution in this pathogen. 2) The signature left by the spread of amplified genome segments is broad, but results in only limited reduction in diversity. If such "soft" sweeps are common in nature, statistical methods based on diversity reduction may be inefficient at detecting evidence for selection in genome-wide marker screens. This may be particularly likely when mutation rate is high, as appears to be the case for gene duplications, and in pathogen populations where effective population sizes are typically very large.     

Whole genome re‐sequencing reveals evolutionary patterns of sacred lotus (Nelumbo nucifera)

Sacred lotus (Nelumbo nucifera or lotus) is an important aquatic plant in horticulture and ecosystems. As a foundation for exploring genomic variation and evolution among different germplasms, we re‐sequenced 19 individuals from three cultivated temperate lotus subgroups (rhizome, seed and flower lotus), one wild temperate lotus subgroup (wild lotus), one tropical lotus group (Thai lotus) and an outgroup (Nelumbo lutea). Through genetic diversity and polymorphism analysis by non‐missing SNP sites widely distributed in the whole genome, we confirmed that wild and Thai lotus exhibited greater differentiation with a higher genomic diversity compared to cultivated lotus. Rhizome lotus had the lowest genomic diversity and a closer relationship to wild lotus, whereas the genomes of seed and flower lotus were admixed. Genes in energy metabolism process and plant immunity evolved rapidly in lotus, reflecting local adaptation. We established that candidate genes in genomic regions with significant differentiation associated with temperate and tropical lotus divergence always exhibited highly divergent expression pattern. Together, this study comprehensive and credible interpretates important patterns of genetic diversity and relationships, gene evolution, and genomic signature from ecotypic differentiation of sacred lotus.     

Pfcrt genotypes and related microsatellite DNA polymorphisms on Plasmodium falciparum differed among populations in the Greater Mekong Subregion

Malaria morbidity and mortality have decreased gradually in the Greater Mekong Subregion (GMS). Presently, WHO sets a goal to eliminate malaria by 2030 in the GMS. However, drug-resistant malaria has been reported from several endemic areas. To achieve the goal of elimination, the status of the emergence and spread of drug resistance should be monitored. In this study, the genotype of the Plasmodium falciparum chloroquine (CQ) resistance transporter gene (pfcrt) and 6 microsatellite DNA loci flanking the gene were examined. P. falciparum isolates (n?=?136) was collected from malaria patients in Thailand (n?=?50, 2002–2005), Vietnam (n?=?39, 2004), Laos (n?=?15, 2007) and Cambodia (n?=?32, 2009). Amino acid sequences at codons 72–76 on the gene were determined. All of the isolates from Thailand were CQ-resistant (CVIET), as were all of the isolates from Cambodia (CVIET, CVIDT). Thirteen of the 15 isolates (87%) from Laos were CQ-resistant (CVIET, CVIDT), whereas the other 2 (13%) were CQ-susceptible (CVMNK). In contrast, 27 of the 39 isolates (69%) from Vietnam were CQ-susceptible (CVMNK), whereas the other 12 (31%) were CQ-resistant (CVIET, CVIDT, CVMDT) or mixed (CVMNK/CVIDT). The mean of expected heterozygosity of the microsatellite loci was 0.444 in the Thai population, 0.482 in the Cambodian population, and 0.734 in the Vietnamese population. Genetic diversity in the Thai population was significantly lower than that in the Vietnamese population. These results suggested that chloroquine selective pressure on P. falciparum populations is heterogeneous in the GMS. Therefore, further examination to understand the mechanisms behind the emergence and spread of drug-resistant malaria are needed.     

Variation in the nod gene RFLPs, nucleotide sequences of 16S rRNA genes, Nod factors, and nodulation abilities of Bradyrhizobium strains isolated from Thai Vigna plants

The analysis of nod genes and 16S rRNA gene regions, Nod factors, and nodulation abilities of Brady rhizobium strains isolated from tropical Thai Vigna species is reported. A total of 55 Bradyrhizobium strains isolated from two cultivated and six wild Vigna species growing in central and northern Thailand were evaluated. Thai Vigna spp. Bradyrhizobium strains showed higher levels of nod gene RFLP diversity compared with Thai soybean Brady rhizobium strains or temperate strains of Bradyrhizobium japonicum and Bradyrhizobium elkanii. Analysis of the 16S rRNA gene region using selected strains also suggests a high genetic diversity of the Thai Vigna-Bradyrhizobium association. Based on thin-layer chromatography analysis, Nod factors produced by tropical Thai Vigna spp. Brady rhizobium strains are more diverse than temperate Japanese and US strains of B. japonicum and B. elkanii. Thai Vigna spp. Bradyrhizobium strains showed variation in nodulation ability and affinity, estimated by the number of normal nodules versus green nodules in an inoculation study. There are some Bradyrhizobium-host combinations that could not form any nodules, suggesting that some genetic differentiation has evolved in their host range. However, most of the Thai Vigna spp. Bradyrhizobium strains formed nodules on the cultigens soybean (Glycine max), mungbean (Vigna radiata), azuki bean (Vigna angularis), and cowpea (Vigna unguiculata). This is the first study on Bradyrhizobium strains associated with a range of cultivated and wild Vigna and reveals that these Bradyrhizobium strains are diverse and may provide novel sources of useful variation for the improvement of symbiotic systems.