Displaying publications 1 - 20 of 805 in total

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  1. Chan KG, Yin WF, Goh SY
    PMID: 24812228 DOI: 10.1128/genomeA.00427-14
    Pandoraea pnomenusa strain 3kgm has been identified as a quorum-sensing strain isolated from soil. Here, we report the complete genome sequence of P. pnomenusa strain 3kgm by using the Pacific Biosciences single-molecule real-time (PacBio RS SMRT) sequencer high-resolution technology.
    Matched MeSH terms: Base Sequence
  2. Sam KK, Lau NS, Furusawa G, Amirul AA
    Genome announcements, 2017 Oct 19;5(42).
    PMID: 29051257 DOI: 10.1128/genomeA.01147-17
    Hahella sp. strain CCB-MM4 is a halophilic bacterium isolated from estuarine mangrove sediment. The genome sequence of Hahella sp. CCB-MM4 provides insights into exopolysaccharide biosynthesis and the lifestyle of the bacterium thriving in a saline mangrove environment.
    Matched MeSH terms: Base Sequence
  3. Liew KJ, Teo SC, Shamsir MS, Goh KM
    PMID: 31727717 DOI: 10.1128/MRA.01238-19
    Longimonas halophila and Longibacter salinarum are type strains of underexplored genera affiliated with Salisaetaceae Herein, we report the draft genome sequences of two strains of these bacteria, L. halophila KCTC 42399 and L. salinarum KCTC 52045, with the intent of broadening knowledge of this family. Genome annotation and gene mining revealed that both bacteria exhibit amylolytic abilities.
    Matched MeSH terms: Base Sequence
  4. Nijman V
    Folia Primatol., 2020;91(3):228-239.
    PMID: 31578029 DOI: 10.1159/000502093
    Great progress has been made in unravelling the evolutionary history of Asian colobines, largely through the use of dated molecular phylogenies based on multiple markers. The Presbytis langurs are a case in point, with more allopatric species being identified, recognition of Presbytis thomasi from Sumatra rather than P. potenziani from the Mentawai Islands as being the most basal species of the group, and the discovery that P. rubicunda from Borneo is nested among the Sumatran species and only made it to Borneo in the last 1.3 million years. Based on variation in mitochondrial d-loop, it has recently been argued that Malaysia's P. femoralis femoralis is actually P. neglectus neglectus. Unfortunately, despite being available, sequences from the type locality, Singapore, were excluded from the analysis, and none of the newly generated sequences was deposited in GenBank. I manually reconstructed these sequences, which allowed me to present a molecular phylogeny that includes 8 additional sequences from West Malaysia and Singapore. P. neglectus from Malaysia and P. femoralis from Singapore form one monophyletic clade, with minimal divergence. I conclude that recognition of P. neglectus is erroneous and the name is a junior synonym of P. femoralis. Colobine taxonomy and systematics have advanced, and continue to advance, mostly by considering evidence from a wide range of individuals, species and data sets (molecular, behavioural and morphological) rather than focusing on single molecular markers from 1 or 2 species from one small geographic area. For an orderly taxonomic debate where evidence can be evaluated and reinterpreted it is essential that newly generated sequences are deposited in public repositories.
    Matched MeSH terms: Base Sequence*
  5. Chan KG, Chin PS, Tee KK, Chang CY, Yin WF, Sheng KY
    PMID: 25745006 DOI: 10.1128/genomeA.00079-15
    Here, we present the draft genome sequence of Aeromonas caviae strain L12, which shows quorum-sensing activity. The availability of this genome sequence is important to the research of the quorum-sensing regulatory system in this isolate.
    Matched MeSH terms: Base Sequence
  6. Chan KG, Yin WF, Tee KK, Chang CY, Priya K
    PMID: 26021935 DOI: 10.1128/genomeA.00565-15
    We report the draft genome sequence of Pandoraea sp. strain E26 isolated from a former landfill site, sequenced by the Illumina MiSeq platform. This genome sequence will be useful to further understand the quorum-sensing system of this isolate.
    Matched MeSH terms: Base Sequence
  7. Chan KG, Chen JW, Chang CY, Yin WF, Chan XY
    PMID: 25814592 DOI: 10.1128/genomeA.00095-15
    In this work, we describe the genome of Lysinibacillus sp. strain A1, which was isolated from tropical soil. Analysis of its genome sequence shows the presence of a gene encoding for a putative peptidase responsible for nitrogen compounds.
    Matched MeSH terms: Base Sequence
  8. Tan KH, Sheng KY, Chang CY, Yin WF, Chan KG
    PMID: 25657288 DOI: 10.1128/genomeA.01542-14
    Dickeya sp. strain 2B12 was isolated from a freshwater lake in Malaysia. Here, we report the draft genome sequence of Dickeya sp. 2B12 sequenced by the Illumina MiSeq platform. With the genome sequence available, this genome sequence will be useful for the study of quorum-sensing activity in this isolate.
    Matched MeSH terms: Base Sequence
  9. Ee R, Ambrose M, Lazenby J, Williams P, Chan KG, Roddam L
    PMID: 25657265 DOI: 10.1128/genomeA.01389-14
    Pandoraea is an emerging respiratory pathogen capable of causing chronic lung infections in people with cystic fibrosis (CF), but the clinical significance of this infection is ambiguous. We have sequenced and annotated the genomes of two multidrug-resistant Pandoraea pnomenusa isolates recovered 11 months apart from the same CF patient.
    Matched MeSH terms: Base Sequence
  10. Chan KG, Tee KK, Yin WF, Tan JY
    PMID: 25502672 DOI: 10.1128/genomeA.01276-14
    Pluralibacter gergoviae FB2, a bacterial strain isolated from packed food, has been found to exhibit quorum-quenching properties. Hence, we report the first, complete genome of P. gergoviae sequenced using the Pacific Biosciences single-molecule, real-time (SMRT) platform.
    Matched MeSH terms: Base Sequence
  11. Tan WS, Yin WF, Chan KG
    PMID: 25555739 DOI: 10.1128/genomeA.01372-14
    Aeromonas hydrophila species can be found in warm climates and can survive in different environments. They possess the ability to communicate within their populations, which is known as quorum sensing. In this work, we present the draft genome sequence of A. hydrophila M013, a bacterium isolated from a Malaysian tropical rainforest waterfall.
    Matched MeSH terms: Base Sequence
  12. Chan KG, Tan KH, Yin WF, Tan JY
    PMID: 25523782 DOI: 10.1128/genomeA.01339-14
    We report here the complete genome sequence of C. neteri SSMD04, a strain isolated from pickled mackerel sashimi, sequenced by third-generation sequencing technology. To the best of our knowledge, this is the first documentation that reports the complete genome of Cedecea neteri.
    Matched MeSH terms: Base Sequence
  13. Chan KG, Wong CS, Yin WF, Chan XY
    PMID: 24744329 DOI: 10.1128/genomeA.00258-14
    Pseudomonas aeruginosa has a broad range of habitation, from aquatic environments to human lungs. The coexistence of quorum-sensing and quorum-quenching activities occurs in P. aeruginosa strain MW3a. In this work, we present the draft genome sequence of P. aeruginosa MW3a, an interesting bacterium isolated from a marine environment.
    Matched MeSH terms: Base Sequence
  14. Chan KG, Yunos NY
    PMID: 26941152 DOI: 10.1128/genomeA.00081-16
    Here, we report the draft genome sequence of Chromobacterium piscinae strain ND17. This bacterium was isolated from a fresh water sample in Malaysia and exhibits quorum-sensing activity. This first draft genome of C. piscinae strain ND17 will pave the way to future studies of the quorum-sensing properties of this isolate.
    Matched MeSH terms: Base Sequence
  15. Ng KT, Lee YM, Al-Darraji HA, Xia X, Takebe Y, Chan KG, et al.
    Genome announcements, 2013 Jan;1(1).
    PMID: 23409272 DOI: 10.1128/genomeA.00168-12
    We report the full genome sequence of hepatitis C virus (HCV) subtype 6n from Kuala Lumpur, Malaysia. Phylogenetic analysis of the isolate 10MYKJ032 suggests that Southeast Asia might be the origin for the HCV subtype 6n and highlights the possible spread of this lineage from Southeast Asia to other regions.
    Matched MeSH terms: Base Sequence
  16. MOHAMAD, O., HO, W. S.
    MyJurnal
    Sanger sequencing has been the major method in directly sequencing DNA, and has dominated the DNA sequencing market for nearly past 30 years (Varshney et al., 2009). Along with PCR, we cannot underestimate how important this technology has been to research in various elds of molecular biology. It has revolutionized genetics by allowing us to gain unprecedented insights into the
    workings of different organisms.
    Matched MeSH terms: Base Sequence
  17. Mohd Bahari Z, Ibrahim Z, Jaafar J, Shahir S
    Genome announcements, 2017 Oct 26;5(43).
    PMID: 29074663 DOI: 10.1128/genomeA.01183-17
    Microbacterium sp. strain SZ1 isolated from gold ores of a Malaysia gold mine was found to be highly resistant to arsenic. Here, we report the draft genome sequence of SZ1, which may provide further insights into understanding its arsenic resistance mechanism. In this draft genome, a complete set of ars operons and two additional scattered ars genes were encoded.
    Matched MeSH terms: Base Sequence
  18. Too CC, Ong KS, Lee SM, Yule CM, Keller A
    PMID: 30533674 DOI: 10.1128/MRA.01083-18
    The bacterium Dyella sp. strain C9 was isolated from North Selangor Peat Swamp Forest, Malaysia, and studied using whole-genome sequencing. The putative genes involved in biogeochemical processes were annotated, and the genome sequence is publicly available in the NCBI database.
    Matched MeSH terms: Base Sequence
  19. Gan HM, Lee MVJ, Savka MA
    PMID: 30533933 DOI: 10.1128/MRA.01045-18
    Using Illumina and Nanopore reads, we assembled a high-quality draft genome sequence of Allorhizobium vitis K309T (= ATCC 49767T, = NCPPB 3554T), a phytopathogenic strain isolated from a grapevine in Australia. The hybrid approach generated 50% fewer contigs and a 3-fold increase in the N50 value compared with the previous Illumina-only assembly.
    Matched MeSH terms: Base Sequence
  20. Too CC, Ong KS, Ankenbrand MJ, Lee SM, Yule CM, Keller A
    Genome announcements, 2018 Jun 21;6(25).
    PMID: 29930066 DOI: 10.1128/genomeA.00561-18
    We report the draft genome sequence of a bacterial isolate, Paraburkholderia sp. strain C35, which was isolated from a Malaysian tropical peat swamp forest. The putative genes for the biogeochemical processes were annotated and are publicly available in the online databases.
    Matched MeSH terms: Base Sequence
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