24 Works

Data from: Repeated land mass reformation limits diversification in the widespread littoral zone mosquito Anopheles sundaicus sensu lato in the Indo-Oriental Region

Magdalena Zarowiecki, Yvonne-Marie Linton, Rory J. Post, Michael J. Bangs, Pe Than Htun, Thaung Hlaing, Chang Moh Seng, Visut Baimai, Trung Ho Ding, Tho Sochantha & Catherine Walton
Southeast Asia harbours abundant biodiversity, hypothesized to have been generated by Pliocene and Pleistocene climatic and environmental change. Vicariance between the island of Borneo, the remaining Indonesian archipelago and mainland Southeast Asia caused by elevated sea levels during interglacial periods has been proposed to lead to diversification in the littoral zone mosquito Anopheles (Cellia) sundaicus (Rodenwaldt) sensu lato. To test this biogeographical hypothesis, we inferred the population history and assessed gene flow of A. sundaicus...

Data from: Performance of TaqMan Array Card to detect TB drug resistance on direct specimens

Sayera Banu, Suporn Pholwat, Suporn Foongladda, Rattapha Chinli, Duangjai Boonlert, Sara Sabrina Ferdous, S.M. Mazidur Rahman, Arfatur Rahman, Shahriar Ahmed & Eric R. Houpt
Culture based phenotypic drug susceptibility testing (DST) for Mycobacterium tuberculosis (TB) is time consuming therefore rapid genotypic methods are increasingly being utilized. We previously developed and evaluated on TB isolates a rapid genotypic TaqMan array card (TAC) that detects mutations in several resistance-associated genes using dozens of primer pairs, probes, and high resolution melt analysis, with >96% accuracy versus Sanger sequencing. In this study we examined the performance of TAC on sputum, comparing results between...

Data from: Assessing the distribution of disease-bearing rodents in human-modified tropical landscapes

Serge Morand, Frédéric Bordes, Kim Blasdell, Shai Pilosof, Jean-François Cornu, Kittipong Chaisiri, Yannick Chaval, Jean-François Cosson, Julien Claude, Tristan Feyfant, Vincent Herbreteau, Stéphane Dupuy & Annelise Tran
1. We tested how habitat structure and fragmentation affect the spatial distribution of common murine rodents inhabiting human-dominated landscapes in southeast Asia. The spatial distribution patterns observed for each rodent species were then used to assess how changes in habitat structure may potentially affect the risk of several major rodent-borne diseases. 2. For this analysis, we used an extensive geo-referenced database containing details of rodents trapped from seven sites in Thailand, Cambodia and Lao PDR....

Complex post-breeding moult strategies in a songbird migrating along the East Asian flyway, the Pallas’s Grasshopper Warbler Locustella certhiola

Wieland Heim, Hans-Jürgen Eilts, Philip D. Round, Oleg Bourski, Batmunkh Davaasuren, Tuvshinjargal Erdenechimeg & Jong-Gil Park
Moult strategies have received relatively little attention in current ornithology, and knowledge concerning the evolution, variability and extent of moult is sparse in many bird species. This is especially true for East Asian Locustella species where assumptions on moult patterns are based on incomplete information. We provide evidence indicating a complex post-breeding moult strategy and variable moult extent among Pallas’s Grasshopper Warbler Locustella certhiola, based on data from six ringing sites situated along its flyway...

Data from: Foraging strategies of generalist and specialist Old World nectar bats in response to temporally variable floral resources

Alyssa B. Stewart & Michele R. Dudash
Foraging theory predicts that generalist foragers should switch resources more readily, while specialist foragers should remain constant to preferred food resources. Plant-pollinator interactions provide a convenient system to test such predictions because floral resources are often temporally patchy, thus requiring long-lived pollinators to switch resources seasonally. Furthermore, flowering phenologies range from ‘steady-state’ (low-rewarding but highly reliable) to ‘big-bang’ (high-rewarding but ephemeral) plant species. We assessed how nectarivorous Old World bats respond to this temporally variable...

Two new species of Kaempferia subgenus Protanthium (Zingiberaceae) from Northern Thailand

Nattapon Nopporncharoenkul, Woranuch Laongsri & Thaya Jenjittikul
Kaempferia aurora Noppornch. & Jenjitt., from Tak province near the Thailand-Myanmar border, and K. caespitosa Noppornch. & Jenjitt., from Lampang province, Northern Thailand, are described as new species of subgenus Protanthium (Horan.) Baker. The diagnostic characters are clearly compared with the similar species. Detailed illustrations, photographs of floral dissection, information of phenology, distribution and ecology, and preliminary conservation status are provided for each new taxon. An identification key to the species of Kaempferia subgen. Protanthium...

Data from: Changing landscapes of Southeast Asia and rodent-borne diseases: decreased diversity but increased transmission risks

Serge Morand, Kim Blasdell, Frédéric Bordes, Philippe Buchy, Bernard Carcy, Kittipong Chaisiri, Yannick Chaval, Julien Claude, Jean-François Cosson, Marc Desquesnes, Sathaporn Jittapalapong, Tawisa Jiyipong, Anamika Karnchanabanthoen, Pumhom Pornpan, Jean-Marc Rolain & Annelise Tran
The reduction in biodiversity through land use changes due to urbanization and agricultural intensification, appears linked to major epidemiological changes in many human diseases. Increasing disease risks and the emergence of novel pathogens appear to result from increased contact between wildlife, domesticated animals and humans. We investigate how increasing human domination of the environment may favor generalist and synanthropic rodent species and affect the diversity and prevalence of rodent-borne pathogens in Southeast Asia, a hotspot...

The interplay of color and bioacoustic traits in the differentiation of a Southeast Asian songbird complex

Chyi Yin Gwee, Qiao Le Lee, Simon Mahood, Le Manh Hung, Robert Tizard, Krairat Eiamampai, Philip Round & Frank Rheindt
Morphological traits have served generations of biologists as a taxonomic indicator, and have been the main basis for defining and classifying species diversity for centuries. A quantitative integration of behavioural characters, such as vocalizations, in studies on biotic differentiation has arisen more recently, and the relative importance of these different traits in the diversification process remains poorly understood. To provide a framework within which to interpret the evolutionary interplay between morphological and behavioral traits, we...

Data from: Flower-visiting bat species contribute unequally toward agricultural pollination ecosystem services in southern Thailand

Alyssa B. Stewart & Michele R. Dudash
The large majority of angiosperm species depend on animals for pollination, including many agricultural crops, and plant-pollinator interactions have been extensively studied. However, not all floral visitors actually transfer pollen, and efforts to distinguish true pollinators from mere visitors are particularly scarce among the bat pollination literature. To determine whether Old World bat species are equally effective pollinators in mixed-agricultural areas of southern Thailand, we examined six night-blooming plant taxa and quantified pollinator importance (PI)...

Continued adaptation of C4 photosynthesis after an initial burst of changes in the Andropogoneae grasses

Matheus Bianconi, Jan Hackel, Maria Vorontsova, Adriana Alberti, Watchara Arthan, Sean Burke, Melvin Duvall, Elizabeth Kellogg, Sébastien Lavergne, Michael McKain, Alexandre Meunier, Colin Osborne, Paweena Traiperm, Pascal-Antoine Christin & Guillaume Besnard
C4 photosynthesis is a complex trait that sustains fast growth and high productivity in tropical and subtropical conditions and evolved repeatedly in flowering plants. One of the major C4 lineages is Andropogoneae, a group of ~ 1,200 grass species that includes some of the world's most important crops and species dominating tropical and some temperate grasslands. Previous efforts to understand C4 evolution in the group have compared a few model C4 plants to distantly related...

Data from: Host-parasite network structure is associated with community-level immunogenetic diversity

Shai Pilosof, Miguel A. Fortuna, Jean-François Cosson, Maxime Galan, Chaisiri Kittipong, Alexis Ribas, Eran Segal, Boris R. Krasnov, Serge Morand & Jordi Bascompte
Genes of the major histocompatibility complex (MHC) encode proteins that recognize foreign antigens and are thus crucial for immune response. In a population of a single host species, parasite-mediated selection drives MHC allelic diversity. However, in a community-wide context, species interactions may modulate selection regimes because the prevalence of a given parasite in a given host may depend on its prevalence in other hosts. By combining network analysis with immunogenetics, we show that host species...

Data from: Vitamin D status among Thai school children and the association with 1,25-dihydroxyvitamin D and parathyroid hormone levels

Lisa A. Houghton, Andrew R. Gray, Michelle J. Harper, Pattanee Winichagoon, Tippawan Pongcharoen, Sueppong Gowachirapant & Rosalind S. Gibson
In several low latitude countries, vitamin D deficiency is emerging as a public health issue. Adequate vitamin D is essential for bone health in rapidly growing children. In the Thai population, little is known about serum 25-hydroxyvitamin D [25(OH)D] status of infants and children. Moreover, the association between 25(OH)D and the biological active form of 1,25-dihydroxyvitamin D [1,25(OH)]2D is not clear. The specific aims of this study were to characterize circulating serum 25(OH)D, 1,25(OH)2D and...

Data from: Modeling the dynamics of Plasmodium vivax infection and hypnozoite reactivation in vivo

Adeshina I. Adekunle, Mykola Pinkevych, Rose McGready, Christine Luxemburger, Lisa J. White, Francois Nosten, Deborah Cromer & Miles P. Davenport
The dynamics of Plasmodium vivax infection is characterized by reactivation of hypnozoites at varying time intervals. The relative contribution of new P. vivax infection and reactivation of dormant liver stage hypnozoites to initiation of blood stage infection is unclear. In this study, we investigate the contribution of new inoculations of P. vivax sporozoites to primary infection versus reactivation of hypnozoites by modeling the dynamics of P. vivax infection in Thailand in patients receiving treatment for...

Data from: High interannual variation in the diet of a tropical forest frugivore (Hylobates lar)

Udomlux Suwanvecho, Warren Y. Brockelman, Anuttara Nathalang, Jantima Santon, Umaporn Matmoon, Rathasart Somnuk & Narong Mahannop
Frugivores must deal with seasonal changes in fruit availability and changes from year to year, as most species of tropical forest fruiting trees have considerable interannual variation in phenology and many are mast fruiters. We quantified seasonal and interannual changes in the fruit diet in a frugivore and important seed disperser, the white-handed gibbon, Hylobates lar, in Thailand. We used 40-day following data during April and May replicated in six consecutive years to study interannual...

Data from: Interacting networks of resistance, virulence and core machinery genes identified by genome-wide epistasis analysis

Marcin J. Skwark, Nicholas J. Croucher, Santeri Puranen, Claire Chewapreecha, Maiju Pesonen, Ying Ying Xu, Paul Turner, Simon R. Harris, Stephen B. Beres, James M. Musser, Julian Parkhill, Stephen D. Bentley, Erik Aurell & Jukka Corander
Recent advances in the scale and diversity of population genomic datasets for bacteria now provide the potential for genome-wide patterns of co-evolution to be studied at the resolution of individual bases. Here we describe a new statistical method, genomeDCA, which uses recent advances in computational structural biology to identify the polymorphic loci under the strongest co-evolutionary pressures. We apply genomeDCA to two large population data sets representing the major human pathogens Streptococcus pneumoniae (pneumococcus) and...

Data from: The effect of roads on spider monkeys’ home range and mobility in a heterogeneous regenerating forest

Norberto Asensio, Elvin Murillo-Chacon, Colleen M. Schaffner & Filippo Aureli
Arboreal fauna living in tropical ecosystems may be particularly affected by roads given their dependency on forest cover and the high vulnerability of such ecosystems to changes. Over a period of four years, we followed subgroups of spider monkeys living in a regenerating dry tropical forest with 8.2 km of roads within their home range. We aimed to understand whether roads shaped the home range of spider monkeys and which road features affected their movement....

Data from: The relationship between poverty and healthcare seeking among patients hospitalized with acute febrile illnesses in Chittagong, Bangladesh

Michael Trent Herdman, Richard James Maude, , Hugh W. F. Kingston, Atthanee Jeeyapant, Rasheda Samad, Rezaul Karim, Arjen M. Dondorp &
Delays in seeking appropriate healthcare can increase the case fatality of acute febrile illnesses, and circuitous routes of care-seeking can have a catastrophic financial impact upon patients in low-income settings. To investigate the relationship between poverty and pre-hospital delays for patients with acute febrile illnesses, we recruited a cross-sectional, convenience sample of 527 acutely ill adults and children aged over 6 months, with a documented fever ≥38.0°C and symptoms of up to 14 days’ duration,...

Data from: Two-phase importance sampling for inference about transmission trees

Elina Numminen, Claire Chewapreecha, Jukka Sirén, Claudia Turner, Paul Turner, Stephen D. Bentley, Jukka Corander & J. Siren
There has been growing interest in the statistics community to develop methods for inferring transmission pathways of infectious pathogens from molecular sequence data. For many datasets, the computational challenge lies in the huge dimension of the missing data. Here, we introduce an importance sampling scheme in which the transmission trees and phylogenies of pathogens are both sampled from reasonable importance distributions, alleviating the inference. Using this approach, arbitrary models of transmission could be considered, contrary...

Data from: Cytonuclear discordance among the Southeast Asian Black rats (Rattus rattus complex)

Marie Pagès, Eric Bazin, Maxime Galan, Yannick Chaval, Julien Claude, Vincent Herbreteau, Johan Michaux, Sylvain Piry, Serge Morand & Jean-François Cosson
Black rats are major invasive vertebrate pests with severe ecological, economic and health impacts. Remarkably, their evolutionary history has received little attention, and there is no firm agreement on how many species should be recognized within the black rat complex. This species complex is native to India and Southeast Asia. According to current taxonomic classification, there are three taxa living in sympatry in several parts of Thailand, Cambodia and Lao People's Democratic Republic, where this...

Data from: Forecasting potential emergence of zoonotic diseases in Southeast Asia: network analysis identifies key rodent hosts

Frédéric Bordes, Alexandre Caron, Kim Blasdell, Michel De Garine-Wichatitsky & Serge Morand
1. Within complex ecological systems, identifying animal species likely to play a key role in the emergence of infectious zoonotic diseases remains a major challenge. One approach consists of using information on current ecological and parasitological similarities among host species in order to predict the most likely pathways for future pathogen spillover. 2. Using field data acquired from 15 sympatric rodent species in various habitats in Thailand, Cambodia and Laos, we built networks based on...

Data from: Strong and stable geographic differentiation of swamp buffalo maternal and paternal lineages indicates domestication in the China/Indochina border region

Yi Zhang, Yongfang Lu, Marnoch Yindee, Kuan-Yi Li, Hsiao-Yun Kuo, Yu-Ten Ju, Shaohui Ye, , Qiang Li, Yachun Wang, Vu Chi Cuong, Lan Doan Pham, Bounthong Bouahom, Bingzhuang Yang, Xianwei Liang, Zhihua Cai, Dianne Vankan, Wallaya Manatchaiworakul, Nonglid Kowlim, Somphot Duangchantrasiri, Worawidh Wajjwalku, Ben Colenbrander, Yuan Zhang, Peter Beerli, Johannes A. Lenstra … & J. Stuart F. Barker
The swamp type of the Asian water buffalo is assumed to have been domesticated by about 4000 years BP, following the introduction of rice cultivation. Previous localizations of the domestication site were based on mitochondrial DNA (mtDNA) variation within China, accounting only for the maternal lineage. We carried out a comprehensive sampling of China, Taiwan, Vietnam, Laos, Thailand, Nepal and Bangladesh and sequenced the mtDNA Cytochrome b gene and control region and the Y-chromosomal ZFY,...

Data from: Blood-stage parasitaemia and age determine Plasmodium falciparum and P. vivax gametocytaemia in Papua New Guinea

Cristian Koepfli, Leanne J. Robinson, Patricia Rarau, Mary Salib, Naomi Sambale, Rahel Wampfler, Inoni Betuela, Wang Nuitragool, Alyssa E. Barry, Peter Siba, Ingrid Felger & Ivo Mueller
A better understanding of human-to-mosquito transmission is crucial to control malaria. In order to assess factors associated with gametocyte carriage, 2083 samples were collected in a cross-sectional survey in Papua New Guinea. Plasmodium species were detected by light microscopy and qPCR and gametocytes by detection of pfs25 and pvs25 mRNA transcripts by reverse-transcriptase PCR (qRT-PCR). The parasite prevalence by PCR was 18.5% for Plasmodium falciparum and 13.0% for P. vivax. 52.5% of all infections were...

Data from: Habitat fragmentation alters the properties of a host-parasite network: rodents and their helminths in South-East Asia

Frédéric Bordes, Serge Morand, Shai Pilosof, Julien Claude, Jean-François Cosson, Yannick Chaval, Alexis Ribas, Kittipong Chaisiri, Kim Blasdell, Annelise Tran, Stéphane Dupuy & Boris R. Krasnov
1. While the effects of deforestation and habitat fragmentation on parasite prevalence or richness are well investigated, host–parasite networks are still understudied despite their importance in understanding the mechanisms of these major disturbances. Because fragmentation may negatively impact species occupancy, abundance and co-occurrence, we predict a link between spatiotemporal changes in habitat and the architecture of host–parasite networks. 2. For this, we used an extensive data set on 16 rodent species and 29 helminth species...

Data from: Naturally acquired antibody responses to more than 300 Plasmodium vivax proteins in three geographic regions

Rhea J. Longley, Michael T. White, Eizo Takashima, Masayuki Morita, Bernard N. Kanoi, Connie S. N. Li Wai Suen, Inoni Betuela, Andrea Kuehn, Piyarat Sripoorote, Camila T. Franca, Peter Siba, Leanne J. Robinson, Marcus Lacerda, Jetsumon Sattabongkot, Takafumi Tsuboi & Ivo Mueller
Plasmodium vivax remains an important cause of malaria in South America and the Asia-Pacific. Naturally acquired antibody responses against multiple P. vivax proteins have been described in numerous countries, however, direct comparison of these responses has been difficult with different methodologies employed. We measured antibody responses against 307 P. vivax proteins at the time of P. vivax infection, and at 2–3 later time-points in three countries. We observed that seropositivity rates at the time of...

Registration Year

  • 2020
  • 2019
  • 2017
  • 2016
  • 2015
  • 2014
  • 2012

Resource Types

  • Dataset


  • Mahidol University
  • Centre de Coopération Internationale en Recherche Agronomique pour le Développement
  • French National Centre for Scientific Research
  • Wellcome Trust
  • Australian Animal Health Laboratory
  • University of Oxford
  • South Dakota State University
  • Walter and Eliza Hall Institute of Medical Research
  • University of Melbourne
  • University of Helsinki