Research - Genes and Genomes

What It Is About

The extraordinary progress that has been made in sequencing technologies in the past few years has revolutionized research in genomics studies. During the last decade, the advent of genome sequencing technologies has allowed the deciphering of genome sequences of more than 2,000 individuals of eukaryotes as well as more than 10,000 individuals of prokaryotes. Today’s complex genomic research questions have propelled sequencing technologies to even greater advancements. Some approaches deliver unprecedented throughput and speed, generating a wealth of data that greatly improves the analysis of increasingly complex phenotypes. Alternatively, other approaches now aim to produce long reads that enable the efficient de novo sequencing or characterization of genome of nontraditional species. These and other strategies constitute an opportunity for researchers to understand the genetic basis underlying phenotype and to study biological systems in ways never before possible. Here, at the Centre for Chemical Biology, USM, we characterize the genomes of individual organisms and systems of organisms from the Malaysian environment and study their genes and functions.

Research

Genome of mini-fish

Miniaturization, or the phenomenon of extreme body size reduction compared to other species in the same lineage, is frequently encountered in fishes. Fishes maturing at sizes less than 20 mm have been termed ‘miniature fish’ or ‘mini-fish’. Miniaturized taxa are often paedomorphic, resulting from truncation of development combined with accelerated maturation. Features of mini-fish could also include the tendency to lose bones and scales or having a poorly ossified, largely cartilaginous skeleton. Paedocypris, which has been described as the world’s smallest vertebrate, is a prominent example among ‘mini-fish’. The sequencing of Paedocypris spp. the genome provides an opportunity for understanding miniaturization evolution in teleost and the study of traits associated with the evolution of small size in ‘mini-fish’.


Paedocypris micromegethes




Iso-Seq of terrestrial crab

Lipid metabolism is critical for proper function in animals.  So far, lipid metabolism in a crustacean is poorly understood.  Nothing is known about the ability of crustacean to biosynthesis polyunsaturated fatty acids.  It is speculated that this capacity is related to the niche of the particular crustacean species.  Using the PacBio Iso-seq method, we identify genes related to the biosynthesis of polyunsaturated fatty acids in terrestrial crab and to gain a full picture of lipid metabolism.

  
Gecarcoidea lalandii
  



Microbiome of oral mucus in tilapia fish
Many species of teleost fish exhibit quite an elaborate form of parental care. Species of Oreochromis (tilapia fish) are mouth brooders; female parents hold and incubate the eggs in their buccal cavity for several days. Fry remain in the females’ mouth through yolk-sac absorption. Apart from the protection and transportation of the young, it is unclear if mouthbrooding provides additional advantages to embryos during incubation. Studies of the microbiome have the potential to reveal important oral mucosal evolutionary processes in Oreochromis sp. and discover symbiotic bacteria that can be used in aquaculture to increase the survival of the young.

  
Oreochromis niloticus
  


Metagenomics insight into microbial communities from the best-managed mangrove soil
   

Matang Mangrove Forest Reserve (MMFR) s been acknowledged as the best sustainably-managed mangrove forest in the world.  Metagenomic data was obtained from two sampling sites at MMFR with distinct features: the Productive Zone and Virgin Jungle Forest. The former zone is designated for tree harvesting while the latter is a pristine area. Matang mangrove metagenomes provide insights into managed mangrove microbiome and serve as important resources for the mining of bacterial species and enzymes involved in litter processing. 

The rubber tree genome - What it tells?

1.  Genome information reveals possible contributors to rubber tree's capacity to produce a high level of latex.
T
he expansion of rubber biosynthesis-related genes (cis-prenyltransferase, small rubber particle protein and rubber elongation factor) in the genome and the high expression of these in latex are possible reasons for rubber tree's capacity to produce a large amount of latex.
2.  Cap analysis gene expression (CAGE) results show tissue-specific transcription profiles of rubber biosynthesis related genes.
Tissue-specific transcriptions of genes are possible alternative means of transcriptional regulation.
3.  Comparative genomic analysis indicates conserved synteny between genomes of the rubber tree, cassava, castor bean and jatropha.
Rubber tree gene blocks showed one-to-one, one-to-two and one-to-three synteny relationships with their orthologues in jatropha, cassava and castor bean, respectively.


 

The polysaccharide-degrading marine bacterium, Persicobacter sp. CCB-QB2

Numerous bacteria isolated from the marine environment are known for their agarolytic property. These agarolytic microorganisms produce agarases to hydrolyze and metabolize agar as carbon and energy sources. Persicobacter sp. CCB-QB2, isolated from seaweed collected from the coastal area of Penang, was found to exhibit diauxic growth in the presence of two nutrients: tryptone and agar. Whole-genome and transcriptome sequencing were performed to study the diauxic growth in strain CCB-QB2.


Agar hydrolyzing activity from culture supernatant: (a) culture supernatant with agar; (b) culture supernatant without agar.

 

Novel Mangrovimonas-like strains isolated from estuarine mangrove sediment

Three Mangrovimonas-like strains, TPB4T (=LMG 28913T, = JCM 30882T), ST2L12T(=LMG 28914T, =JCM 30880T) and ST2L15T(=LMG 28915T,=JCM 30881T) were isolated from estuarine mangrove sediment of Matang Mangrove Forest.  Genome information of these isolates reveals xylan and arabaian utilization genes that are not reported in other Mangrovimonas.

 

The marine predatory bacterium, Aureispira sp. CCB-QB1

The genus Aureispira is known for its predatory lifestyle that preys on other marine bacteria via 'ixotrophy'.  Aureispira sp. strain CCB-QB! was isolated from the coastal area of Penang, Malaysia and selected for genome sequencing as there was no genome information available so far from the genus Aureispira.  Analysis of the genome reveals pathways for polyunsaturated fatty acid and diterpenoid biosynthesis.

Globin
Phase contrast image of Aureispirasp. CCB-QB1.

 

 



  

Publications

    1. Complete genome sequence of the novel agarolytic Catenovulum-like strain CCB-QB4      
      Nyok-Sean Lau, Wei Run Tan, Go Furusawa and Al-Ashraf Abdullah Amirul.2019 Marine Genomics, 43:50-53.
    2. Diversity and coding potential of the microbiota in the photic and aphotic zones of tropical man-made lake with intensive aquaculture activities: a case study on Temengor Lake, Malaysia                  
      Nyok-Sean Lau, Kamarul Zaman Zarkasi, Amir Shah Ruddin Md Sah and Alexander Chong Shu-Chien.2018Microbial Ecology, https://doi.org/10.1007/s00248-018-1283-0.
    3. Metagenomic insights into the phylogenetic and functional profiles of soil microbiome from a managed mangrove in Malaysia                                                                                         
      Gunaselvam Priya, Nyok-Sean Lau, Go Furusawa, Balachandran Dinesh, Swee Yeok Foong and Al-Ashraf Abdullah Amirul.               2018 AgriGene, 9:5-15.
    4. Genome organization of Escherichia Phage YD-2008.s: A new entry to Siphoviridae family
      Dharmela Sellvam, Nyok-Sean Lau and Yahya Mat Arip.  2018Tropical Life Sciences Research, 29:37-50.
    5. Construction of Pará rubber tree genome and multi-transcriptome database accelerates rubber research
      Yuko Makita, Mika Kawashima, Nyok-Sean Lau, Ahmad Sofiman Othman and Minami Matsui.2018BMC Genomics, doi: 10.1186/s12864-017-433-y.
    6. Large-scale collection of full-length cDNA and transcriptome analysis in Hevea brasiliensis
      Yuko Makita, Kiaw Kiaw Ng, G. Veera Singham, Mika Kawashima, Hideki Hirakawa, Shusei Sato, Ahmad Sofiman Othman and Minami Matsui.   017 DNA Research, 24(2):159–167.
    7. Draft genome sequence of halophilic Hahella sp. strain CCB-MM4, isolated from Matang Mangrove Forest in Perak, Malaysia
      Ka-Kei Sam, Nyok-Sean Lau, Go Furusawa and Al-Ashraf Abdullah Amirul.     2017 
      Genome Announcements, 5(42):e01147-17. 
    8. Identification of three homologous latex-clearing protein (lcp) genes from the genome of Streptomyces sp. strain CFMR 7
      Jayaram Nanthini, Su Yean Ong and Kumar Sudesh.   017 
      Gene, 628:146-155.
    9. Complete genome sequence of Microbulbifer sp. CCB-MM1, a halophile isolated from Matang Mangrove Forest, Malaysia.
      Tsu Horng Moh, Nyok-Sean Lau, Go Furusawa and Al-Ashraf Abdullah Amirul.  2017 
      Standards in Genomic Sciences, 12(1):36. 
    10. Agarolytic bacterium Persicobacter sp. CCB-QB2 exhibited a diauxic growth involving galactose utilization pathway.                                                                                                           
      Go Furusawa, Nyok-Sean Lau, Suganthi Appalasamy, Al-Ashraf Abdullah Amirul.   2017 Microbiology Open, .
    11. Complete genome sequence of Proteus mirabilis phage pPM_01 isolated from raw sewage
      Wirjon I.A., Nyok-Sean Lau, Arip Y.M.  2017 
      Intervirology, 59: 243-253. 
    12. Genome features of moderately halophilic polyhdroxyalkanoate-producing Yangia sp. CCB-MM3
      Nyok-Sean Lau, Ka-Kei Sam and Al-Ashraf Abdullah Amirul.  2017 
      Standards in Genomic Sciences, 12:12.
    13. Complete genome sequences of three Cupriavidus strains isolated from various Malaysian environmentsNur Asilla Hani Shafie, Nyok-Sean Lau, Hema Ramachandran and Al-Ashraf Abdullah Amirul.  2017 Genome Announcements.
    14. The rubber tree genome shows expansion of gene family associated with rubber biosynthesis
      Nyok-Sean Lau, Yuko Makita, Mika Kawashima, Todd D Taylor, Shinji Kondo, Ahmad Sofiman Othman, Alexander Chong Shu-Chien and Minami Matsui.  2016 
      Scientific Reports.
    15. Comparative genome analyses of novel Mangroviomas-like strains isolated from estuarine mangrove sediments reveal xylan and arabinan utilization genes
      Balachandran Dinesh, Nyok-Sean Lau, Furusawa Go, Seok-Won Kim, Todd D Taylor, Swee Yeok Foong and Alexander Chong Shu-Chien.  2016
       Marine Genomics.
    16. Identification of polyunsaturated fatty acid and diterpenoid biosynthesis pathways from draft genome of Aureispira sp. CCB-QB1
      Furusawa Go, Nyok-Sean Lau, Alexander Chong Shu-Chien, Annette Jaya Ram and Al-Ashraf Abdullah Amirul.  2015 
      Marine Genomics,19:39.
    17. Draft genome sequence of the rubber tree Hevea brasiliensis
      Ahmad Yamin Abdul Rahman, Abhilash O. Usharraj, Biswapriya B. Misra, Gincy P. Thottathil, Kandakumar Jayasekaran, Yun Feng, Shaobin Hou, Su Yean Ong, Fui Ling Ng, Ling Sze Lee, Hock 

2020


Complete mitogenome of Uca rosea and Uca paradussumieri, and their implications in evolution history of fiddler crab in Ocypodidae
Ting, S.Y., Lau, N.-S., Shu-Chien, A.C.
(2020) Mitochondrial DNA Part B: Resources, 5 (3), pp. 2024-2025. 


Droplet-vitrification of Aranda Broga Blue orchid: Role of ascorbic acid on the antioxidant system and genetic fidelity assessments via RAPD and SCoT markers
Khor, S.P., Yeow, L.C., Poobathy, R., Zakaria, R., Chew, B.L., Subramaniam, S.
(2020) Biotechnology Reports, 26, art. no. e00448,

Two Elongases, Elovl4 and Elovl6, Fulfill the Elongation Routes of the LC-PUFA Biosynthesis Pathway in the Orange Mud Crab (Scylla olivacea)
Ting, S.Y., Janaranjani, M., Merosha, P., Sam, K.-K., Wong, S.C., Goh, P.-T., Mah, M.-Q., Kuah, M.-K., Chong Shu-Chien, A. 
(2020) Journal of Agricultural and Food Chemistry, 68 (14), pp. 4116-4130.

Performance of commercial insecticide formulations against different developmental stages of insecticide-resistant tropical bed bugs (Hemiptera: Cimicidae)
Leong, X.-Y., Kim, D.-Y., Dang, K., Singham, G.V., Doggett, S.L., Lee, C.-Y. 
(2020) Journal of Economic Entomology, 113 (1), pp. 353-366. 

Crystal structure of a neoagarobiose-producing GH16 family β-agarase from Persicobacter sp. CCB-QB2
Teh, A.-H., Fazli, N.H., Furusawa, G. 
(2020) Applied Microbiology and Biotechnology, 104 (2), pp. 633-641. 

Functional characterisation of fatty acyl desaturase, Fads2, and elongase, Elovl5, in the Boddart's goggle-eyed goby Boleophthalmus boddarti (Gobiidae) suggests an incapacity for long-chain polyunsaturated fatty acid biosynthesis
Soo, H.-J., Sam, K.K., Chong, J., Lau, N.-S., Ting, S.Y., Kuah, M.-K., Kwang, S.Y., Ranjani, M., Shu-Chien, A.C. 
(2020) Journal of Fish Biology, 

The requirements for sterol regulatory element-binding protein (Srebp) and stimulatory protein 1 (Sp1)-binding elements in the transcriptional activation of two freshwater fish Channa striata and Danio rerio elovl5 elongase
Goh, P.-T., Kuah, M.-K., Chew, Y.-S., Teh, H.-Y., Shu-Chien, A.C. 
(2020) Fish Physiology and Biochemistry,


2019

Designing Novel Interfaces Via Surface Functionalization Of Short-Chain-Length Polyhydroxyalkanoates 
Vigneswari, S., Chai, J.M., Shantini, K., Bhubalan, K., Amirul, A.A. 
(2019) Advances in Polymer Technology, 2019, art. no. 3831251, .

Complete Genome Sequence Of The Novel Agarolytic Catenovulum-Like Strain CCB-QB4 
Lau, N.-S., Tan, W.R., Furusawa, G., Amirul, A.-A.A. 
(2019) Marine Genomics, 43, pp. 50-53.

Purification and characterization of new bio-plastic degrading enzyme from Burkholderia cepacia DP1 
Azura Azami, N., Ira Aryani, W., Aik-Hong, T., Amirul, A.A. 
(2019) Protein Expression and Purification, 155, pp. 35-42.

High PHA density fed-batch cultivation strategies for 4HB-rich P(3HB-co-4HB) copolymer production
by transformant Cupriavidus malaysiensis USMAA1020 
Norhafini, H., Huong, K.-H., Amirul, A.A. 
(2019) International Journal of Biological Macromolecules, 125, pp. 1024-1032.

Biochemical Characterization of Thermostable and Detergent-Tolerant β-Agarase, PdAgaC, from 
Persicobacter sp. CCB-QB2 
Hafizah, N.F., Teh, A.-H., Furusawa, G. 
(2019) Applied Biochemistry and Biotechnology, 187 (3), pp. 770-781.


The effect of short alkane bridges in stability of bisbenzimidazole-2-ylidene silver(I) complexes: synthesis, crystal structure and antibacterial activity 
Loh, Y.L., Haziz, U.F.M., Haque, R.A., Amirul, A.A., Aidda, O.N., Razali, M.R. 
(2019) Journal of Coordination Chemistry, 72 (5-7), pp. 894-907. 

Circadian rhythms in insecticide susceptibility, metabolic enzyme activity, and gene expression
in Cimex lectularius (Hemiptera: Cimicidae)Cimex lectularius (Hemiptera: Cimicidae)

Khalid, M.F., Lee, C.-Y., Doggett, S.L., Veera Singham, G.
(2019) PLoS ONE, 14 (6), art. no. e0218343, .

Molecular cloning, phylogenetic analysis and functional characterisation of an Elovl7-like elongase
from a marine crustacean, the orange mud crab (Scylla olivacea)
Mah, M.-Q., Kuah, M.-K., Ting, S.Y., Merosha, P., Janaranjani, M., Goh, P.-T., Jaya-Ram, A., Shu-Chien, A.C.
(2019) Comparative Biochemistry and Physiology Part - B: Biochemistry and Molecular Biology, 232, pp. 60-71.

Genomic analysis of methicillin-resistant Staphylococcus aureus strain SO-1977 froSudan
Ali, M.S., Isa, N.M., Abedelrhman, F.M., Alyas, T.B., Mohammed, S.E., Ahmed, A.E., Ahmed, Z.S.A., Lau, N.-S., Garbi, M.I.,
Amirul, A.A.-A., Seed, A.O., Omer, R.A., Mohamed, S.B.
(2019) BMC Microbiology, 19 (1), art. no. 126, .

Crystal Structure And Epitope Analysis Of House Dust Mite Allergen Der F 21
Pang, S.L., Ho, K.L., Waterman, J., Rambo, R.P., Teh, A.-H., Mathavan, I., Harris, G., Beis, K., Say, Y.-H.,
Anusha, M.S., Sio, Y.Y., Chew, F.T., Ng, C.L.
(2019) Scientific Reports, 9 (1), art. no. 4933, .

Diversity And Coding Potential Of The Microbiota In The Photic And Aphotic Zones Of Tropical Man-Made Lake
With Intensive Aquaculture Activities: A Case Study On Temengor Lake, Malaysia
Lau, N.-S., Zarkasi, K.Z., Md Sah, A.S.R., Shu-Chien, A.C.
(2019) Microbial Ecology, 78 (1), pP. 20-32.

Identification and characterization of jasmonic acid- and linolenic acid-mediated transcriptional regulation of secondary laticifer differentiation in Hevea brasiliensis
Loh, S.C.Othman, A.S.Veera Singham, G.
(2019) Scientific Reports, 9 (1), art. no. 14296,
 

Draft genome sequence of the halophilic Pararhodobacter-like strain CCB-MM2, which has polyhydroxyalkanoate-synthesizing potential
Sam, K.-K., Lau, N.-S., Furusawa, G., Abdullah Amirul, A.-A.
(2019) Microbiology Resource Announcements, 8 (46), art. no. e01248-19,

Surface sterilization and micropropagation of Ludisia discolor
Poobathy, R., Zakaria, R., Murugaiyah, V., Subramaniam, S.
(2019) Biocatalysis and Agricultural Biotechnology, 22, art. no. 101380,
 

Single-nucleotide polymorphism markers within MVA and MEP pathways among Hevea brasiliensis clones through transcriptomic analysis
Abdul Rahman, S.N., Bakar, M.F.A., Singham, G.V., Othman, A.S.
(2019) 3 Biotech, 9 (11), art. no. 388,
 

Effects of plant growth regulators and activated charcoal on somaclonal variations of protocorm-like bodies (PLBs) of Dendrobium Sabin Blue orchid
Chin, C.K., Lee, Z.H., Mubbarakh, S.A., James Antony, J.J., Chew, B.L., Subramaniam, S.
(2019) Biocatalysis and Agricultural Biotechnology, 22, art. no. 101426,
 

New class of non-symmetrical homo-dibenzimidazolium salts and their dinuclear Silver(I) di-NHC complexes
Haziz, U.F.M., Haque, R.A., Amirul, A.A., Aidda, O.N., Razali, M.R.
(2019) Journal of Organometallic Chemistry, 899, art. no. 120914,
 

Black sea cucumber (: Holothuria atra Jaeger, 1833) rescues Pseudomonas aeruginosa-infected Caenorhabditis elegans via reduction of pathogen virulence factors and enhancement of host immunity
Lee, W.-T., Tan, B.-K., Eng, S.-A., Yuen, G.C., Chan, K.L., Sim, Y.K., Sulaiman, S.F., Shu-Chien, A.C.
(2019) Food and Function, 10 (9), pp. 5759-5767.
 

Biodiversity of plant polysaccharide-degrading bacteria in mangrove ecosystem
Furusawa, G.
(2019) Tropical Life Sciences Research, 30 (3), pp. 157-172.

 

2018

Crystal structure and functional analysis of human C1ORF123 
Rahaman, S.N.A., Yusop, J.M., Mohamed-Hussein, Z.-A., Aizat, W.M., Ho, K.L., Teh, A.-H., Waterman, J., Tan, B.K., 
Tan, H.L., Li, A.Y., Chen, E.S., Ng, C.L. 
(2018) PeerJ, 2018 (9), art. no. e5377, .


Cupriavidus Malaysiensis Sp. Nov., A Novel Poly(3-Hydroxybutyrate-Co-4-Hydroxybutyrate) Accumulating Bacterium Isolated From The Malaysian Environment 
Ramachandran, H., Shafie, N.A.H., Sudesh, K., Azizan, M.N., Majid, M.I.A., Amirul, A.-A.A. 
(2018) Antonie van Leeuwenhoek, International Journal of General and Molecular Microbiology, 111 (3), pp. 361-372.

Correction to: Cupriavidus malaysiensis sp. nov., a novel poly(3-hydroxybutyrate-co-4-hydroxybutyrate)
accumulating bacterium isolated from the Malaysian environment (Antonie van Leeuwenhoek, (2018), 
111, 3, (361-372), 10.1007/s10482-017-0958-8) 
Ramachandran, H., Shafie, N.A.H., Sudesh, K., Azizan, M.N., Majid, M.I.A., Amirul, A.-A.A. 
(2018) Antonie van Leeuwenhoek, International Journal of General and Molecular Microbiology, 111 (4), p. 637.

Production of high molecular weight poly(3-hydroxybutyrate-co-4-hydroxybutyrate) copolymer by
Cupriavidus malaysiensis USMAA1020 utilising substrate with longer carbon chain 
Huong, K.-H., Elina, K.A.R., Amirul, A.A. 
(2018) International Journal of Biological Macromolecules, 116, pp. 217-223.

Metagenomic insights into the phylogenetic and functional profiles of soil microbiome from a managed
mangrove in Malaysia 
Priya, G., Lau, N.-S., Furusawa, G., Dinesh, B., Foong, S.Y., Amirul, A.-A.A. 
(2018) Agri Gene, 9, pp. 5-15.

Modelling of polyhydroxyalkanoate synthase from Aquitalea sp. USM4 suggests a novel mechanism for
polymer elongation
Teh, A.-H., Chiam, N.-C., Furusawa, G., Sudesh, K.
(2018) International Journal of Biological Macromolecules, 119, pp. 438-445.

Morphometric variation and genetic relationship of coptotermes spp. (Blattodea: Rhinotermitidae)
in Sarawak, Malaysia
Jamil, N., Wan Ismail, W.N., Singham, G.V. 
(2018) Malaysian Applied Biology, 47 (6), pp. 113-125.

Capacity for eicosapentaenoic acid and arachidonic acid biosynthesis in silver barb (Barbonymus gonionotus): Functional characterisation of a Δ6/Δ8/Δ5 Fads2 desaturase and Elovl5 elongase 
Janaranjani, M., Mah, M.-Q., Kuah, M.-K., Fadhilah, N., Hing, S.-R., Han, W.-Y., Shu-Chien, A.C. 
(2018) Aquaculture, 497, pp. 469-486.

Transcriptional activation of zebrafish fads2 promoter and its transient transgene expression in yolk
syncytial layer of zebrafish embryos
Tay, S.-S., Kuah, M.-K., Shu-Chien, A.C.
(2018) Scientific Reports, 8 (1), art. no. 3874, .

Data on partial polyhydroxyalkanoate synthase genes (phaC) mined from Aaptos aaptos marine sponge-
associated bacteria metagenome 

Amelia, T.S.M., Amirul, A.-A.A., Bhubalan, K.
(2018) Data in Brief, 16, pp. 75-80.

Construction of Pará rubber tree genome and multi-transcriptome database accelerates rubber researches
Makita, Y., Kawashima, M., Lau, N.S., Othman, A.S., Matsui, M.
(2018) BMC Genomics, 19, art. no. 922, .

2017

Phylogeography of the termite Macrotermes gilvus and insight into ancient dispersal corridors in Pleistocene Southeast Asia
G. Veera Singham, Ahmad Sofiman Othman, Chow-Yang Lee. PLOS One (2017), doi.org/10.1371/journal.pone.0186690

Functional and Structural Studies of a Multidomain Alginate Lyase from Persicobacter sp. CCB-QB2
Sim, P.-F., Furusawa, G., Teh, A.-H.Scientific Reports (2017), 7(1),13656

A Marine Actinomycete Rescues Caenorhabditis elegans from Pseudomonas aeruginosa Infection through Restitution of Lysozyme 7
Siti N. Fatin, Tan Boon-Khai, Alexander Chong Shu-Chien, Melati Khairuddean and Amirul Al-Ashraf Abdullah. Frontiers in Microbiology (2017), doi.org/10.3389/fmicb.2017.02267

Cupriavidus malaysiensis sp. nov., a novel poly(3-hydroxybutyrate-co-4-hydroxybutyrate) accumulating bacterium isolated from the Malaysian environment
Hema Ramachandran, Nur Asilla Hani Shafie, Kumar Sudesh, Mohamad Noor Azizan, Mohamad Isa Abdul Majid, Al-Ashraf Abdullah Amirul.Antonie van Leeuwenhoek, International Journal of General and Molecular Microbiology (2017), pp. 1-12

Draft genome sequence of halophilic Hahella sp. strain CCB-MM4, isolated from Matang Mangrove Forest in Perak, Malaysia
Ka-Kei Sam, Nyok Sean Lau, Go Furusawa, Al-Ashraf Abdullah Amirul..Genome Announcements. (2017), 5(42),e01147-17

Microbulbifer aggregans sp. nov., isolated from estuarine sediment from a mangrove forest
Moh, T.H., Furusawa, G., Amirul, A.A.-A.International Journal of Systematic and Evolutionary Microbiology (2017), 67(10),002258, pp. 4089-4094.

Synthesis of poly(3-hydroxybutyrate) with high 4HB composition and PHA content using 1,4-butanediol and 1,6-hexanediol for medical application
Hambali Norhafini, L. Thinagaran, K. Shantini, Kai-Hee Huong, Ishak Muhammad Syafiq, Kesaven Bhubalan, A. A. Amirul. Journal of Polymer Research (2017), 24 (189)

Effect of dietary lipid source on expression of lipid metabolism genes and tissue lipid profile in juvenile spiny lobster Sagmariasus verreauxi
Shu-Chien A.C., Han W.-Y., Carter C.G., Fitzgibbon Q.P., Simon C.J., Battaglene S.C., Codabaccus B.M., Kuah M.-K., Ventura T.Aquaculture (2017), 479:342-351

Identification of three homologous latex-clearing protein (lcp) genes from the genome of Streptomyces sp. strain CFMR 7
Nanthini, J., Ong, S.Y., Sudesh, K..Gene (2017), 628, pp. 146-155

Biodegradation of Natural Rubber and Natural Rubber Products by Streptomyces sp. Strain CFMR 7
Nanthini, J., Sudesh, K.Journal of Polymers and the Environment (2017), 25(3), pp. 606-616

En route to economical eco-friendly solvent system in enhancing sustainable recovery of poly(3-hydroxybutyrate-co-4-hydroxybutyrate) copolymer

Nik Murniati Nik Man Irdahayu, Kannusamy Shantini, kai-Hee Huong, Sevakumaran Vigneswari, Nursolehah Abdul Aziz, Mohd. Noor Mohd. Azizan, Al-Ashraf Abdullah Amirul. Engineering in Life Sciences (2017), 17,1050-1059


Microbial-based synthesis of highly elastomeric biodegradable poly(3-hydroxybutyrate-co-4-hydroxybutyrate) thermoplastic
Huong K-H, Teh C.-H, Amirul A.-A.A.International Journal of Biological Macromolecules (2017), 101:983-995

Complete genome sequence of Microbulbifer sp. CCB-MM1, a halophile isolated from Matang Mangrove Forest, Malaysia.
Moh, T.H., Lau, N.-S., Furusawa, G., Amirul, A.-A.A..Standards in Genomic Sciences (2017), 12(1),36

Pilot scale production of poly(3-hydroxybutyrate-co-4-hydroxybutyrate) biopolymers with high molecular weight and elastomeric properties
Huong K-H, Azuraini M.J., Aziz N.A., Amirul A.-A.A.Journal of Bioscience and Bioengineering (2017), 124:76-83

Insecticide resistance and resistance mechanisms in bed bugs, Cimex spp. (Hemiptera: Cimicidae)
Dang, K., Doggett, S.L., Veera Singham, G., Lee, C.-Y.Parasites and Vectors (2017), doi:10.1186/s13071-017-2232-3

Exploring the Potential of 1-Pentanol and Oleic Acid for Optimizing the Production of Poly(3-hydroxybutyrate-co-3-hydroxyvalerate) Copolymer by Cupriavidus sp. USMAA1020
Huong K.-H., Amirul A.A., Shantini K., Sharmini R. Arabian Journal for Science and Engineering (2017), 42 (6), pp. 2313-2320

Combination of 4-Hydroxybutyrate Carbon Precursors as Substrate for Simultaneous Production of P(3HB-co-4HB) and Yellow Pigment by Cupriavidus sp. USMAHM13
I. Iszatty, O. Noor Aidda, R. Hema, A. A. Amirul. Arabian Journal for Science and Engineering (2017), 42 (6), pp. 2303–2311

Enhanced degradation of polyhydroxyalkanoates (PHAs) by newly isolated Burkholderia cepacia DP1 with high depolymerase activity
Azami, N.A., Wirjon, I.A., Kannusamy, S., Teh, A.-H., Abdullah, A.A.-A. 3 Biotech (2017), doi: 10.1007/s13205-017-0716-7

Enhanced production of poly(3-hydroxybutyrate-co-4-hydroxybutyrate) copolymer and antimicrobial yellow pigmentation from Cupriavidus sp. USMAHM13 with antibiofilm capability
Ismail, I., Gurusamy, T.P., Ramachandran, H., Al-Ashraf Amirul, A. Preparative Biochemistry and Biotechnology (2017), 47,388-396

Effects of Different Surfaces and Insecticide Carriers on Residual Insecticide Bioassays Againts Bed Bugs, Cimex spp. (Hemiptera: Cimicidae)
Kai Dang, G. Veera Singham, Stephen L. Doggett, David G. Lilly and Chow-Yang Lee.2017. Journal of Economic Entomology, 1-9

Large-scale collection of full-length cDNA and transcriptome analysis in Hevea brasiliensis
Yuko Makita, Kiaw Kiaw Ng, G. Veera Singham, Mika Kawashima, Hideki Hirakawa, Shushei Sato, Ahmad Sofiman Othman, Minami Matsui.2017. DNA Research, 1-11

synthesis of high 4-hydroxybutyrate copolymer by Cupriavidus sp. transformants using one-stage cultivation and mixed precursor substrates strategy
Syafiq I.M., Bhubalan K., Huong K.-H., Vigneswari S., Amirul A.A., Shantini K., Aziz N.A. 2017. Enzyme and Microbial Technology,98,1-8

Agarolytic bacterium Persicobacter sp. CCB-QB2 exhibited a diauxic growth involving galactose utilization pathway
Go Furusawa, Nyok-Sean Lau, Suganthi Appalasamy, Amirul Al-Ashraf Abdullah. Microbiology Open (2017), doi: 10.1002/mbo3.405

Crystallization and X-ray crystallographic analysis of recombinant TylP, a putative γ-butyrolactone receptor protein from Streptomyces fradiae
Mohd-Sharif N., Shaibullah S., Baharum S.N., Ng C.L., Givajothi V., Tan C.-S., Ho K.L., Teh A.-H., Waterman J. Acta Cryst. F (2017), 73,109-115

Genome feautures of moderately halophilic polyhydroxyalkanoate-producing Yangia sp. CCB-MM3

Nyok-Sean Lau, Ka-Kei Sam, Abdullah Al-Ashraf Amirul. 2017. Standards in Genomic Sciences, doi:10.1186/s40793-017-0232-8


Mangrovimonas xylaniphaga sp. nov. isolated from estuarine mangrove sediment of matang mangrove forest, malaysia
Balachandra Dinesh, Go Furusawa, A. A. Amirul. 2017. Archives of Microbiology, 199-63-67

Complete genome sequences of three Cupriavidus strains isolated from various Malaysian environments
Shafie N.A.H., Lau N.-S., Amirul A.A., Ramachandran H.2017. Genome Announcements (2017), doi: 10.1128/genomeA.01498-16

A fed-batch strategy to produce high poly(3-hydroxybutyrate-co-3-hydroxyvalerate-co-4-hydroxybutyrate) terpolymer yield with enhanced mechanical properties in bioreactor
Nursolehah Abd Aziz, Kai-Hee Huong, Coswald Stephen Sipaut, A. A. Amirul. Bioprocess and Biosystems Engineering (2017), 40,1643-1656

Members

Prof. Dr. Alexander Chong Shu Chien (Principal Investigator)
Prof. Dr. Ahmad Sofiman Othman (Principal Investigator)
Dr. Lau Nyok Sean (Research Officer)
Teng Seng Yeat (PhD Student)
Sam Ka Kei (PhD Student)