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  1. Population data on 15 STR loci using AmpF/STR Identifiler kit in a Malay population living in and around Kuala Lumpur, Malaysia
    Maruyama S, Minaguchi K, Takezaki N, Nambiar P
    Leg Med (Tokyo), 2008 May;10(3):160-2.
    PMID: 18180191 DOI: 10.1016/j.legalmed.2007.11.002
    Allele frequencies for 15 short tandem repeat (STR) loci D8S1179, D21S11, D7S820, CSF1PO, D3S1358, TH01, D13S317, D16S539, D2S1338, D19S433, vWA, TPOX, D18S51, D5S818 and FGA (AmpF/STR Identifiler PCR Amplification kit, PE Applied Biosystems) were obtained from a sample of 110 unrelated individuals from the Malay population living in and around Kuala Lumpur, Malaysia, and the characteristics of the population was compared with other East Asian populations.
    Matched MeSH terms: Tandem Repeat Sequences*
  2. STR data for the AmpFlSTR Identifiler loci from the three main ethnic indigenous population groups (Iban, Bidayuh, and Melanau) in Sarawak, Malaysia
    Suadi Z, Siew LC, Tie R, Hui WB, Asam A, Thiew SH, et al.
    J Forensic Sci, 2007 Jan;52(1):231-4.
    PMID: 17209948
    Matched MeSH terms: Tandem Repeat Sequences*
  3. Allele frequency distribution for 9 STR loci in the Tamil population of Malaysia
    Panneerchelvam S, Thevan KK, KokFai L, Saravanakumar M, Sumathy V, Yuvaneswari KC, et al.
    J Forensic Sci, 2004 Jul;49(4):863-4.
    PMID: 15317219
    Matched MeSH terms: Tandem Repeat Sequences*
  4. Allele frequency distribution for 10 STR loci in the Malay population of Malaysia
    Panneerchelvam S, Haslindawaty N, Ravichandran M, Norazmi MN, Zainuddin ZF
    J Forensic Sci, 2003 Mar;48(2):451-2.
    PMID: 12665016
    Matched MeSH terms: Tandem Repeat Sequences*
  5. Allele frequencies for the PowerPlex 16 STR loci in Javanese population in Malaysia
    Othman MI, Seah LH, Panneerchelvam S, Nor NM
    J Forensic Sci, 2004 Jan;49(1):190-1.
    PMID: 14979376
    Matched MeSH terms: Tandem Repeat Sequences*
  6. Polymorphism studies of four miniSTR loci for three ethnic populations in Singapore
    Yong RY, Gan LS, Coble MD, Yap EP
    Leg Med (Tokyo), 2007 Sep;9(5):278-81.
    PMID: 17467323
    MiniSTR loci has demonstrated to be an effective approach to recover genetic information from degraded sample, due to the improved PCR efficiency of their reduced PCR amplicon sizes. This study constructed a partial miniSGM panel and investigated the performance of four miniSTR loci, D2S1338, D16S539, D18S51 and FGA, in three ethnic populations residing in Singapore. The suitability of the miniSTR primers for Singapore populations was assessed for loci D16S539, D18S51 and FGA.
    Matched MeSH terms: Tandem Repeat Sequences*
  7. Allele frequency data for nine STRs polymorphism in a Gurkha population of Malaysia
    Tuladhar BS, Haslindawaty N, Nada B, Panneerchelvam S, Norazmi MN
    J Forensic Sci, 2006 Sep;51(5):1205-6.
    PMID: 17018114
    Matched MeSH terms: Tandem Repeat Sequences*
  8. A distinct Y-STR haplotype for Amelogenin negative males characterized by a large Y(p)11.2 (DYS458-MSY1-AMEL-Y) deletion
    Chang YM, Perumal R, Keat PY, Yong RY, Kuehn DL, Burgoyne L
    Forensic Sci Int, 2007 Mar 2;166(2-3):115-20.
    PMID: 16765004
    The use of STR multiplexes with the incorporated gender marker Amelogenin is common practice in forensic DNA analysis. However, when a known male sample shows a dropout of the Amelogenin Y-allele, the STR system falsely genotypes it as a female. To date, our laboratory has observed 18 such cases: 12 from our Y-STR database and six from casework. A study on 980 male individuals in the Malaysian population using the AmpFlSTR Y-filer has revealed a distinct Y-chromosome haplotype associated with the Amelogenin nulls. Our results showed that whilst the Amelogenin nulls were noticeably absent among the Chinese, both the Indians and Malays exhibited such mutations at 3.2 and 0.6%, respectively. It was also found that the Amelogenin negative individuals predominantly belonged to the J2e lineage, suggesting the possibility of a common ancestor for at least some of these chromosomes. The null frequencies showed concordance with the data published in Chang et al. [Higher failures of Amelogenin sex test in an Indian population group, J. Forensic Sci. 48 (2003) 1309-1313] on a smaller Malaysian population of 338 males which used a Y-STR triplex. In the current study, apart from the absence of the Amelogenin Y-locus, a complete absence of the DYS458 locus in all the nulls was also observed. This study together with the 2003 study has indicated a similar deletion region exists on the Y(p)11.2 band in all the 18 Y-chromosomes. Using bioinformatics, this deletion has been mapped to a region of at least 1.13 Mb on the Y(p)11.2 encompassing the Amelogenin, MSY1 minisatellite and DYS458 locus. Further, the Y-filer haplotypes revealed an additional null at Y-GATA H4 in two of the Indian males presented here.
    Matched MeSH terms: Tandem Repeat Sequences*
  9. Haplotype diversity of 16 Y-chromosomal STRs in three main ethnic populations (Malays, Chinese and Indians) in Malaysia
    Chang YM, Perumal R, Keat PY, Kuehn DL
    Forensic Sci Int, 2007 Mar 22;167(1):70-6.
    PMID: 16457976
    We have analyzed 16 Y-STR loci (DYS456, DYS389I, DYS390, DYS389II, DYS458, DYS19, DYS385a/b, DYS393, DYS391, DYS439, DYS635 or Y-GATA C4, DYS392, Y-GATA H4, DYS437, DYS438 and DYS448) from the non-recombining region of the human Y-chromosome in 980 male individuals from three main ethnic populations in Malaysia (Malay, Chinese, Indian) using the AmpFlSTR((R)) Y-filertrade mark (Applied Biosystems, Foster City, CA). The observed 17-loci haplotypes and the individual allele frequencies for each locus were estimated, whilst the locus diversity, haplotype diversity and discrimination capacity were calculated in the three ethnic populations. Analysis of molecular variance indicated that 88.7% of the haplotypic variation is found within population and 11.3% is between populations (fixation index F(ST)=0.113, p=0.000). This study has revealed Y-chromosomes with null alleles at several Y-loci, namely DYS458, DYS392, DYS389I, DYS389II, DYS439, DYS448 and Y-GATA H4; and several occurrences of duplications at the highly polymorphic DYS385 loci. Some of these deleted loci were in regions of the Y(q) arm that have been implicated in the occurrence of male infertility.
    Matched MeSH terms: Tandem Repeat Sequences*
  10. STR data for the 13 CODIS loci in Singapore Malays
    Ang HC, Sornarajah R, Lim SE, Syn CK, Tan-Siew WF, Chow ST, et al.
    Forensic Sci Int, 2005 Mar 10;148(2-3):243-5.
    PMID: 15639622
    Allele frequencies for the 13 CODIS (Combined DNA Index System, USA) STR loci included in the AmpFISTR Profiler Plus and AmpFISTR Cofiler kits (Applied Biosystems, Foster City, USA) were determined in a sample of 197 unrelated Malays in Singapore.
    Matched MeSH terms: Tandem Repeat Sequences*
  11. Polymorphism of 9 STRs in ethnic Chinese population of Malaysia
    Panneerchelvam S, Kumara KT, KokFai L, Saravanakumar M, Sumathy V, Yuvaneswari KC, et al.
    J Forensic Sci, 2004 Sep;49(5):1132-3.
    PMID: 15461127
    Matched MeSH terms: Tandem Repeat Sequences*
  12. STR data for the PowerPlex 16 System loci for the Malays, Chinese and Indians groups of the Malaysian population
    Izuan M, Seah LH, Panneerchelvam S, Nor NM
    J Forensic Sci, 2005 Sep;50(5):1225-8.
    PMID: 16225237
    Matched MeSH terms: Tandem Repeat Sequences*
  13. Autosomal STR polymorphism in Sikh population of Peninsular Malaysia
    Teck TC, Kook SC, Badruddin N, Panneerchelvam S, Norazmi MN
    J Forensic Sci, 2005 Sep;50(5):1223-4.
    PMID: 16225236 DOI: 10.1520/JFS2005156
    Matched MeSH terms: Tandem Repeat Sequences*
  14. STR Data for the AmpFlSTR Identifiler loci in three ethnic groups (Malay, Chinese, Indian) of the Malaysian population
    Seah LH, Jeevan NH, Othman MI, Jaya P, Ooi YS, Wong PC, et al.
    Forensic Sci Int, 2003 Dec 17;138(1-3):134-7.
    PMID: 14642733
    Allele frequencies for the 15 STR loci in the AmpFlSTR Identifiler kit were determined and compared for the three main ethnic groups of the Malaysian population comprising 210 Malays, 219 Chinese and 209 Indians. Blood was placed on FTA paper and DNA was purified in-situ.
    Matched MeSH terms: Tandem Repeat Sequences*
  15. Whole-Genome Sequencing of Pseudomonas koreensis Isolated from Diseased Tor tambroides
    Kho CJY, Lau MML, Chung HH, Chew IYY, Gan HM
    Curr Microbiol, 2023 Jun 25;80(8):255.
    PMID: 37356021 DOI: 10.1007/s00284-023-03354-5
    Unlike environmental P. koreensis isolated from soil, which has been studied extensively for its role in promoting plant growth, pathogenic P. koreensis isolated from fish has been rarely reported. Therefore, we investigated and isolated the possible pathogen that is responsible for the diseased state of Tor tambroides. Herein, we reported the morphological and biochemical characteristics, as well as whole-genome sequences of a newly identified P. koreensis strain. We assembled a high-quality draft genome of P. koreensis CM-01 with a contig N50 value of 233,601 bp and 99.5% BUSCO completeness. The genome assembly of P. koreensis CM-01 is consists of 6,171,880 bp with a G+C content of 60.5%. Annotation of the genome identified 5538 protein-coding genes, 3 rRNA genes, 54 tRNAs, and no plasmids were found. Besides these, 39 interspersed repeat and 141 tandem repeat sequences, 6 prophages, 51 genomic islands, 94 insertion sequences, 4 clustered regularly interspaced short palindromic repeats, 5 antibiotic-resistant genes, and 150 virulence genes were also predicted in the P. koreensis CM-01 genome. Culture-based approach showed that CM-01 strain exhibited resistance against ampicillin, aztreonam, clindamycin, and cefoxitin with a calculated multiple antibiotic resistance (MAR) index value of 0.4. In addition, the assembled CM-01 genome was successfully annotated against the Cluster of Orthologous Groups of proteins database, Gene Ontology database, and Kyoto Encyclopedia of Genes and Genome pathway database. A comparative analysis of CM-01 with three representative strains of P. koreensis revealed that 92% of orthologous clusters were conserved among these four genomes, and only the CM-01 strain possesses unique elements related to pathogenicity and virulence. This study provides fundamental phenotypic and genomic information for the newly identified P. koreensis strain.
    Matched MeSH terms: Tandem Repeat Sequences/genetics
  16. Characterisation and Clinical Significance of FLT3-ITD and non-ITD in Acute Myeloid Leukaemia Patients in Kelantan, Northeast Peninsular Malaysia
    Yunus NM, Johan MF, Ali Nagi Al-Jamal H, Husin A, Hussein AR, Hassan R
    Asian Pac J Cancer Prev, 2015;16(12):4869-72.
    PMID: 26163606
    BACKGROUND: Mutations of the FMS-like tyrosine kinase-3 (FLT3) receptor gene may promote proliferation via activation of multiple signaling pathways. FLT3-internal tandem duplication (FLT3-ITD) is the most common gene alteration found in patients diagnosed with acute myeloid leukaemia (AML) and has been associated with poor prognosis.

    MATERIALS AND METHODS: We performed mutational analysis of exons 14-15 and 20 of the FLT3 gene in 54 AML patients using PCR-CSGE (conformational sensitive gel electrophoresis) followed by sequencing analysis to characterise FLT3 mutations in adult patients diagnosed with AML at Hospital USM, Kelantan, Northeast Peninsular Malaysia.

    RESULTS: FLT3 exon 14-15 mutations were identified in 7 of 54 patients (13%) whereas no mutation was found in FLT3 exon 20. Six ITDs and one non-ITD mutation were found in exon 14 of the juxtamembrane (JM) domain of FLT3. FLT3-ITD mutations were associated with a significantly higher blast percentage (p-value=0.008) and white blood cell count (p-value=0.023) but there was no significant difference in median overall survival time for FLT3-ITD+/FLT3-ITD- within 2 years (p-value=0.374).

    CONCLUSIONS: The incidence of FLT3-ITD in AML patients in this particular region of Malaysia is low compared to the Western world and has a significant association with WBC and blast percentage.

    Matched MeSH terms: Tandem Repeat Sequences/genetics*
  17. Molecular detection and genetic diversity of Babesia gibsoni in dogs in Bangladesh
    Terao M, Akter S, Yasin MG, Nakao R, Kato H, Alam MZ, et al.
    Infect Genet Evol, 2015 Apr;31:53-60.
    PMID: 25620376 DOI: 10.1016/j.meegid.2015.01.011
    Babesia gibsoni is a tick-borne hemoprotozoan parasite of dogs that often causes fever and hemolytic illness. Detection of B. gibsoni has been predominantly reported in Asian countries, including Japan, Korea, Taiwan, Malaysia, Bangladesh and India. The present study shows the first molecular characterization of B. gibsoni detected from dogs in Bangladesh. Blood samples were collected on FTA® Elute cards from 50 stray dogs in Mymensingh District in Bangladesh. DNA eluted from the cards was subjected to nested PCR for the 18S rRNA gene of Babesia species. Approximately 800bp PCR products were detected in 15 of 50 dogs (30%). Based on restriction fragment length polymorphism (RFLP) and direct sequencing of the PCR products, all parasite isolates were identified as B. gibsoni. Furthermore, the BgTRAP (B. gibsoni thrombospondin-related adhesive protein) gene fragments were detected in 13 of 15 18S rRNA gene PCR positive blood samples. Phylogenetic analysis of the BgTRAP gene revealed that B. gibsoni parasites in Bangladesh formed a cluster, which was genetically different from other Asian B. gibsoni isolates. In addition, tandem repeat analysis of the BgTRAP gene clearly showed considerable genetic variation among Bangladeshi isolates. These results suggested that B. gibsoni parasites in a different genetic clade are endemic in dogs in Bangladesh. Further studies are required to elucidate the origin, distribution, vector and pathogenesis of B. gibsoni parasites circulating in dogs in Bangladesh.
    Matched MeSH terms: Tandem Repeat Sequences
  18. Higher failures of amelogenin sex test in an Indian population group
    Chang YM, Burgoyne LA, Both K
    J Forensic Sci, 2003 Nov;48(6):1309-13.
    PMID: 14640276
    The human sex test in forensic multiplexes is based on the amelogenin gene on both the X and Y chromosomes commonly used in sex genotyping. In this study of 338 male individuals in a Malaysian population comprising Malays, Chinese and Indians, using the AmpFlSTR Profiler Plus kit, the amelogenin test gave a significant proportion of null alleles in the Indian ethnic group (3.6% frequency) and 0.88% frequency in the Malay ethnic group due to a deletion of the gene on the Y chromosome. This sex test also failed in a forensic casework sample. Failure of the amelogenin test highlights the need for more reliable sex determination than is offered by the amelogenin locus in the Malay and Indian populations. The gender of the Indian-Malay amelogenin nulls was confirmed by the presence of three Y-STR alleles (DYS438, DYS390 and DYS439). For the Indian ethnic group, one of the Y-STR forms a stable haplotype with the amelogenin null. The amelogenin-deletion individuals also showed a null with a male-specific minisatellite MSY1, indicating that a very large deletion was involved that included the amelogenin and the MSY1 loci on the short arm of the Y chromosomes (Yp).
    Matched MeSH terms: Tandem Repeat Sequences
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