Noppol KobmooNational Center for Genetic Engineering and Biotechnology (BIOTEC) | BioTec
Noppol Kobmoo
PhD
Working on the taxonomy and genomics of insect fungi. Looking for a collaborator on adaptation genomics.
About
118
Publications
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Introduction
Noppol Kobmoo currently works at Plant Microbe Interaction Research Team, National Center for Genetic Engineering and Biotechnology (BIOTEC). Noppol does research in diversity, ecology and evolution of entomopathogenic fungi.
Education
September 2006 - December 2009
September 2004 - July 2006
September 2001 - July 2004
Publications
Publications (118)
Karst caves are distinctive ecosystems that have limited nutrients, darkness, low to moderate temperatures, and high moisture levels, which allow for a diverse range of fungal communities to thrive. Despite their significance, little is understood about the fungi found in karst caves in Thailand. In 2019, we studied the cultured mycobiota from five...
Coral reefs are one of the most biodiverse marine ecosystems. Diverse microbes are associated with corals, including zooxanthellae, protists, prokaryotes, and viruses. This study aimed to investigate the genetic diversity of the culturable fungi associated with scleractinian corals in the Gulf of Thailand. Ribosomal DNA sequence analysis and morpho...
Over the past two decades, hypoxylaceous specimens were collected from several sites in Thailand. In this study, we examined their affinity to the genus Pyrenopolyporus using macroscopic and microscopic morphological characters, dereplication of their stromatal secondary metabolites using ultrahigh performance liquid chromatography coupled to diode...
Karst caves are unique oligotrophic ecosystems characterised by the scarcity of organic litter, darkness, low to moderate temperatures, and high humidity, supporting diverse fungal communities. Despite their importance, little is known about the fungi in karst caves in Thailand. In 2019, we explored the culturable mycobiota associated with three se...
Four new species of the genus Niveomyces are described from Thailand. They were found as mycoparasites on: Ophiocordyceps infecting flies ( Diptera ) for Niveomyces albus ; ants ( Hymenoptera ) for N. formicidarum ; and leafhoppers ( Hemiptera ) for N. hirsutellae and N. multisynnematus . A new genus, Pseudoniveomyces with two species: Pseudoniveo....
Four new species of Ophiocordyceps pathogenic to termites, Ophiocordyceps fusiformis, O. globosa, O. isopterae and O. radiciformis, were collected from community forests and described based on morphological characters and molecular phylogenetic data. Ophiocordyceps globosa has pseudo-immersed perithecia and globose conidia, while O. fusiformis, O....
Karst caves are oligotrophic environments that appear to support a high diversity of fungi. Studies of fungi in Thailand’s caves are limited. During a 2019 exploration of the mycobiota associated with soil samples from a karst cave, namely, Phu Pha Phet in the Satun UNESCO Global Geopark in Satun Province, southern Thailand, two previously undescri...
Collections of pathogenic fungi found on spiders from Thailand were selected for a detailed taxonomic study. Morphological comparison and phylogenetic analyses of the combined ITS, LSU, tef1 , rpb1 and rpb2 sequence data indicated that these specimens formed new independent lineages within the Cordycipitaceae, containing two new genera occurring on...
Intragenomic variation is the molecular variation within the genome among repetitive DNA. As a multigene family, nuclear ribosomal DNA (rDNA) has been widely used in fungal taxonomy for their ease in amplification and suitable variability to attain various levels of taxonomic resolution. At the intraspecific level, rDNA is believed to be under conc...
Presentation for the special forum of EU and Thailand cooperation through H2020 RISE framework.
Over 80 species of hypocrealean fungi are reported as pathogens of spiders and harvestmen. Among these fungi, the genus Gibellula is highly regarded as a specialised spider-killer that has never been reported to infect other arthropods. While more than 20 species of Gibellula are known, few attempts to identify the infected spiders have been made d...
A maximum-likelihood reconstruction of ancestral host association was attempted by mapping the taxonomic order of hosts
on a phylogenomics species tree from a previous study of Beauveria taxonomy. The results showed that the ancestor of
this genus had a broad host range with the most likelihood of association to Coleoptera. The most recent common a...
Fungi are rich in complexes of cryptic species that need a combination of different approaches to be delimited, including genomic information. Beauveria ( Cordycipitaceae , Hypocreales ) is a well-known genus of entomopathogenic fungi, used as a biocontrol agent. In this study we present a polyphasic taxonomy regarding two widely distributed comple...
While recent sequencing technologies (third generation sequencing) can successfully sequence all copies of nuclear ribosomal DNA (rDNA) markers present within a genome and offer insights into the intragenomic variation of these markers, high intragenomic variation can be a source of confusion for high-throughput species identification using such te...
An interesting bioluminescent fungus growing on dead bamboo stems was collected from bamboo forests in the East Khasi
and West Jayantia Hills Districts of Meghalaya, Northeast India. Both morphological characteristics and phylogenetic analyses
of nrITS and nrLSU regions showed that the bioluminescent fungus belongs to the genus Roridomyces and is a...
Nine species in Cordycepssensulato producing orange to red stromata were discovered during diversity surveys of arthropod-pathogenic fungi in Thailand. The phylogenetic analyses of combined ITS, LSU, RPB1, RPB2 and TEF1 sequence data indicated four novel species belonging to Blackwellomyces and five novel species of Cordyceps. All Blackwellomyces s...
Fig. 6 of the original version of this article contained wrong pictures which had replaced the right pictures inadvertently during the revision of the manuscript. Please find below the correct pictures for Fig. 6. The authors apologize for such mistake.
Thailand has rich natural resources and diverse ecosystems. From our surveys of entomopathogenic fungi in Thailand over the last decade, 66 Beauveria strains in BIOTEC Culture Collection (BCC) were studied to account for the diversity of this genus in Thailand. Examination of morphological characteristics from various media and phylogenetic analyse...
The identification and delimitation of species boundaries are essential for understanding speciation and adaptation
processes and for the management of biodiversity as well as development for applications. Ophiocordyceps
unilateralis sensu lato is a complex of fungal pathogens parasitizing Formicine ants, inducing zombie behaviors in
their hosts. P...
Identification of the genes underlying adaptation sheds light on the biological functions targeted by natural selection. Searches for footprints of positive selection, in the form of rapid amino‐acid substitutions, and the identification of species‐specific genes have proved to be powerful approaches to identifying the genes involved in host specia...
Recent studies revealed that fungi of the Ophiocordyceps unilateralis sensu lato complex are highly host-specific. Infected ants leave their colony, wander singly with convulsions and eventually bite firmly vegetal substrates in the low vegetation and maintain this position until death. Subsequently, a fungal stroma grows from the back of the ant's...
The Ophiocordyceps myrmecophila complex is composed of pathogens specific to ants, found on the leaf litter or buried in soil and produce Hymenostilbe asexual morph. Species in this complex are morphologically highly similar and can hardly be distinguished macroscopically. To date, it has only been observed on formicine ants of the genera Polyrhach...
In this study, we investigated the effects of exocrine glandular extracts (mandibular glands, post-pharygeal glands) and cuticular extracts of two species of formicine ant Polyrhachis furcata and Colobopsis saundersi on spore germination of two species of host-specific, entomopathogenic fungi Ophiocordyceps unilateralis (Ophiocordycepspolyrhachis-f...
A total of 81 fungal endophytes were isolated from four seagrass species: Cymodocea serrulata, Enhalus acoroides, Halophila ovalis and Thalassia hemprichii obtained from southern Thailand. Isolates were identified through phylogenetic analyses of the nuclear ribosomal (r) DNA sequences. The majority of isolates belonged to three fungal classes in t...
Ficus and their mutualistic pollinating wasps provide a unique model to investigate joint
diversification in a high dispersal system. We investigate genetic structuring in an
extremely wide-ranging Ficus species, F. racemosa, and its pollinating wasp
throughout their range, which extends from India to Australia.
Our samples were structured into fou...
Ophiocordyceps unilateralis is an outstanding insect fungus for its biology to manipulate host ants’ behavior and for its extreme host-specificity. Through the sequencing and annotation of Ophiocordyceps polyrhachis-furcata, a species in the O. unilateralis species complex specific to the ant Polyrhachis furcata, comparative analyses on genes invol...
Ophiocordyceps unilateralis is an ubiquitous pathogen of ants with hidden phylogenetic diversity associated with host specificity. In this study, we describe two new species to this species complex: Ophiocordyceps septa and Ophiocordyceps rami. Both were found on unidentified ants of the genus Camponotus (C. sp.1 and C. sp2 respectively). Ophiocord...
Obligate mutualistic nursery pollination systems between insects and plants have led to substantial co-diversification involving at least some parallel cladogenesis, as documented in Yucca, Ficus and Phyllanthaceae. In such systems pollinators are generally species specific thus limiting hybridization and introgression among interfertile host speci...
Ophiocordyceps unilateralis sensu lato infects ants, modifies their behavior, and is found in many countries around the world. One unifying concept of all such parasitic associations is that both the parasite and the host adapt to maximize their fitness and reproductive output. However, little is known about the reproductive life span of this patho...
Ophiocordyceps unilateralis (Hypocreales, Ascomycetes) is an entomopathogenic fungus specific to formicine ants (Formicinae, Hymenoptera). Previous works have shown that the carpenter ant Camponotus leonardi acts as the principal host with occasional infections of ants from the genus Polyrhachis (sister genus of Camponotus). Observations were made...
Table S1. List of Sycophaginae and outgroup species included in this study. Voucher numbers, taxonomic information, host Ficus species, locality data and GenBank accession numbers for each sequenced fragment. More information is available from the authors upon request.
Non-pollinating Sycophaginae (Hymenoptera, Chalcidoidea) form small communities within Urostigma and Sycomorus fig trees. The species show differences in galling habits and exhibit apterous, winged or dimorphic males. The large gall inducers oviposit early in syconium development and lay few eggs; the small gall inducers lay more eggs soon after po...
Questions
Questions (6)
Hi,
So the question is in the topic. In my future project, I would like to evaluate the ploidy of some fungi. Among different experiments, I think the flow cytometry can also do the job. The only thing is that I have no experience with such experiment. So, I would be really grateful if someone can give me suggestions.
Thank you in advance !
Hi,
I'm reading through some papers about vegetative compatibility groups (VCGs) in fungi and saw that many studies use nit mutants (nitrate-non utilizing mutants) to identify VCGs.
I wonder why we need to do so ?
If VCGs are defined as the capacity of the strains to fuse their mycelia and do anatomosis, isn't it more simple to just cross different strains and see what happen ? Why passing through such complicated manner ?
Hope that anyone here could help.
Best,
Noppol.
Hi,
I'm conducting a population genomics study on fungal populations. I have generated reads from various samples to map on a reference and inferred SNPs that I later use to study various population genetics parameters.
One thing that I did recently is to calculate the r2 between SNPs of various distances and plot them to have an LD decay curve. What surprised me was that the shape of my curve was really weird. I had high r2 at the very start which dropped quite quickly, but at the end of the curve (around 4 - 5 Kbp of distance) the r2 became really dispersed (see the picture). I didn't expect to see such dispersion toward bigger distances. Shall there be any problem with my data ?
For information, I used plink in calculating r2 with the following command:
plink --vcf ~/path/to/my/vcf --thin 0.2 --r2 --ld-window-kb 1000 --ld-window 99999 --ld-window-r2 0 --maf 0.1 --threads 4 --out Outfile_name --allow-extra-chr
then averaged the r2 over bins of 100 bp.
By the way, the reference genome I used is not perfect. Its biggest scaffold is ~500 Kbp (That's why I plotted only until 500 Kb.).
Would anyone have any idea about this weird shape ?
All insights are welcome.
I've seen some dna extractions protocols using lysis buffer containing certain concentration of sucrose. I have been told that it increases the yield of extracted dna. I've been trying to find an explanation for that and it seems like it's about the tonicity of the solution. However, I still don't quite get how it works exactly because, to me, adding sucrose means making the lysis buffer more hypertonic and thus the water should come out from cells making them to shrink and hinder the release of dna... Hope someone can provide me some explanations.
Thank you in advance !
I want to determine the composition of the hemolymph of some ant species which are pretty small (around 1 cm.). So I have to extract the hemolymph from them. I don't know what is the best way to do so, whether I should take from adults or pupae and what kind of technique should I use. If anybody has experiences in this field, I really would like to have some suggestions.
I'm dealing with data on the occurence of fungal samples in a study plot, which is represented in a points pattern. My question is whether the fungal occurences are random, dispersed or clustered spatially and whether the pattern is linked to another ecological factor such as temperature, humidity, light intensity and canopy0
I have pretty clear ideas of how to test statistically whether the pattern is random, dispersed or cluster but I do not have any idea of how to test whether this pattern is linked to another quantitative data.
