List of works - Han Ming Gan

Integrated shotgun sequencing and bioinformatics pipeline allows ultra-fast mitogenome recovery and confirms substantial gene rearrangements in Australian freshwater crayfishes

scientific article published on 3 February 2014

Deciphering chicken gut microbial dynamics based on high-throughput 16S rRNA metagenomics analyses

scientific article

High-resolution bacterial 16S rRNA gene profile meta-analysis and biofilm status reveal common colorectal cancer consortia.

scientific article

DNA metabarcoding of insects and allies: an evaluation of primers and pipelines.

scientific article published on 7 September 2015

Helicobacter pylori Eradication Causes Perturbation of the Human Gut Microbiome in Young Adults

scientific article

Comparative genomic analysis of six bacteria belonging to the genus Novosphingobium: insights into marine adaptation, cell-cell signaling and bioremediation.

scientific article

Analysis of anoxybacillus genomes from the aspects of lifestyle adaptations, prophage diversity, and carbohydrate metabolism

scientific article

Genome sequence of Pichia kudriavzevii M12, a potential producer of bioethanol and phytase

scientific article published on October 2012

Finding Nemo: Hybrid assembly with Oxford Nanopore and Illumina reads greatly improves the Clownfish (Amphiprion ocellaris) genome assembly.

scientific article published on 12 January 2018

MitoPhAST, a new automated mitogenomic phylogeny tool in the post-genomic era with a case study of 89 decapod mitogenomes including eight new freshwater crayfish mitogenomes

scientific article published on February 23, 2015

ORDER within the chaos: Insights into phylogenetic relationships within the Anomura (Crustacea: Decapoda) from mitochondrial sequences and gene order rearrangements

scholarly article by Mun Hua Tan published in October 2018

Biodegradation of 4-aminobenzenesulfonate by Ralstonia sp. PBA and Hydrogenophaga sp. PBC isolated from textile wastewater treatment plant

scientific article published on 20 November 2010

De novo genome assembly and annotation of Australia's largest freshwater fish, the Murray cod (Maccullochella peelii), from Illumina and Nanopore sequencing read

scientific article published on August 2017

The male and female complete mitochondrial genome sequences of the Endangered freshwater mussel Potomida littoralis (Cuvier, 1798) (Bivalvia: Unionidae).

scientific article published on 19 August 2015

Digging deeper: new gene order rearrangements and distinct patterns of codons usage in mitochondrial genomes among shrimps from the Axiidea, Gebiidea and Caridea (Crustacea: Decapoda)

scientific article

Impact of dengue virus (DENV) co-infection on clinical manifestations, disease severity and laboratory parameters

scientific article (publication date: 11 August 2016)

The complete mitogenome of Cherax monticola (Crustacea: Decapoda: Parastacidae), a large highland crayfish from New Guinea

scientific article published on March 11, 2014

Whole genome sequencing and analysis reveal insights into the genetic structure, diversity and evolutionary relatedness of luxI and luxR homologs in bacteria belonging to the Sphingomonadaceae family

scientific article published on January 8, 2015

Identification of an rsh gene from a Novosphingobium sp. necessary for quorum-sensing signal accumulation

scientific article

Identification of genes involved in the 4-aminobenzenesulfonate degradation pathway of Hydrogenophaga sp. PBC via transposon mutagenesis

scientific article published on 8 March 2011

Genome sequence of Novosphingobium sp. strain Rr 2-17, a nopaline crown gall-associated bacterium isolated from Vitis vinifera L. grapevine

scientific article published on September 2012

Field calibration of blowfly-derived DNA against traditional methods for assessing mammal diversity in tropical forests

scientific article

Whole-genome sequences of 13 endophytic bacteria isolated from shrub willow (salix) grown in geneva, new york

scientific article

The complete genome sequence of EC1-UPM, a novel N4-like bacteriophage that infects Escherichia coli O78:K80

scientific article

Draft genome sequence of Pantoea sp. strain A4, a Rafflesia-associated bacterium that produces N-acylhomoserine lactones as quorum-sensing molecules

scientific article published on December 2012

Microbial succession and the functional potential during the fermentation of Chinese soy sauce brine

scientific article

Whole Genome Sequencing of the Asian Arowana (Scleropages formosus) Provides Insights into the Evolution of Ray-Finned Fishes

scientific article

Expansion and systematics redefinition of the most threatened freshwater mussel family, the Margaritiferidae

scientific article published on 03 May 2018

The complete mitogenome of the red claw crayfish Cherax quadricarinatus (Von Martens, 1868) (Crustacea: Decapoda: Parastacidae)

scientific article published on March 11, 2014

Whole-genome sequence of Cupriavidus sp. strain BIS7, a heavy-metal-resistant bacterium

scientific article published on November 2012

Genome sequence of Roseomonas sp. strain B5, a quorum-quenching N-acylhomoserine lactone-degrading bacterium isolated from Malaysian tropical soil

scientific article

Comparative genomics of closely related Salmonella enterica serovar Typhi strains reveals genome dynamics and the acquisition of novel pathogenic elements

scientific article

The complete mitogenome of the freshwater crayfish Cherax cainii (Crustacea: Decapoda: Parastacidae)

scientific article published on January 17, 2014

Genome sequence of Aureobasidium pullulans AY4, an emerging opportunistic fungal pathogen with diverse biotechnological potential

scientific article published on November 2012

Genome sequence of Hydrogenophaga sp. strain PBC, a 4-aminobenzenesulfonate-degrading bacterium

scientific article published on September 2012

Global MLST of Salmonella Typhi Revisited in Post-genomic Era: Genetic Conservation, Population Structure, and Comparative Genomics of Rare Sequence Types.

scientific article published on 2 March 2016

Purifying selection and genetic drift shaped Pleistocene evolution of the mitochondrial genome in an endangered Australian freshwater fish

scientific article published on 4 January 2017

Quorum-sensing signal production by Agrobacterium vitis strains and their tumor-inducing and tartrate-catabolic plasmids.

scientific article

The complete mitogenome of the hermit crab Clibanarius infraspinatus (Hilgendorf, 1869), (Crustacea; Decapoda; Diogenidae) – a new gene order for the Decapoda

article

Nanopore Long-Read Guided Complete Genome Assembly of Hydrogenophaga intermedia, and Genomic Insights into 4-Aminobenzenesulfonate, p-Aminobenzoic Acid and Hydrogen Metabolism in the Genus Hydrogenophaga.

scientific article published on 4 October 2017

The first Margaritiferidae male (M-type) mitogenome: mitochondrial gene order as a potential character for determining higher-order phylogeny within Unionida (Bivalvia)

article

Elucidating the diet of the island flying fox (Pteropus hypomelanus) in Peninsular Malaysia through Illumina Next-Generation Sequencing

scientific article

The complete mitogenome of the crayfish Cherax glaber (Crustacea: Decapoda: Parastacidae)

scientific article published on 03 February 2014

First comprehensive multi-tissue transcriptome of Cherax quadricarinatus (Decapoda: Parastacidae) reveals unexpected diversity of endogenous cellulase

article published in 2015

In-silico Taxonomic Classification of 373 Genomes Reveals Species Misidentification and New Genospecies within the Genus Pseudomonas

scientific article published on 12 July 2017

Signatures of polygenic adaptation associated with climate across the range of a threatened fish species with high genetic connectivity.

scientific article

Draft Genome Sequence of Clostridium perfringens Strain JJC, a Highly Efficient Hydrogen Producer Isolated from Landfill Leachate Sludge

scientific article (publication date: 6 March 2014)

L,L-diaminopimelate aminotransferase (DapL): a putative target for the development of narrow-spectrum antibacterial compounds.

scientific article

Cloning and functional analysis of the genes coding for 4-aminobenzenesulfonate 3,4-dioxygenase from Hydrogenophaga sp. PBC.

scientific article

The complete mitochondrial genome of the invasive house crow Corvus splendens (Passeriformes: Corvidae).

scientific article published on 18 June 2014

List of works by Han Ming Gan

Integrated shotgun sequencing and bioinformatics pipeline allows ultra-fast mitogenome recovery and confirms substantial gene rearrangements in Australian freshwater crayfishes

Deciphering chicken gut microbial dynamics based on high-throughput 16S rRNA metagenomics analyses

High-resolution bacterial 16S rRNA gene profile meta-analysis and biofilm status reveal common colorectal cancer consortia.

DNA metabarcoding of insects and allies: an evaluation of primers and pipelines.

Helicobacter pylori Eradication Causes Perturbation of the Human Gut Microbiome in Young Adults

Comparative genomic analysis of six bacteria belonging to the genus Novosphingobium: insights into marine adaptation, cell-cell signaling and bioremediation.

Analysis of anoxybacillus genomes from the aspects of lifestyle adaptations, prophage diversity, and carbohydrate metabolism

Genome sequence of Pichia kudriavzevii M12, a potential producer of bioethanol and phytase

Finding Nemo: Hybrid assembly with Oxford Nanopore and Illumina reads greatly improves the Clownfish (Amphiprion ocellaris) genome assembly.

MitoPhAST, a new automated mitogenomic phylogeny tool in the post-genomic era with a case study of 89 decapod mitogenomes including eight new freshwater crayfish mitogenomes

ORDER within the chaos: Insights into phylogenetic relationships within the Anomura (Crustacea: Decapoda) from mitochondrial sequences and gene order rearrangements

Biodegradation of 4-aminobenzenesulfonate by Ralstonia sp. PBA and Hydrogenophaga sp. PBC isolated from textile wastewater treatment plant

De novo genome assembly and annotation of Australia's largest freshwater fish, the Murray cod (Maccullochella peelii), from Illumina and Nanopore sequencing read

The male and female complete mitochondrial genome sequences of the Endangered freshwater mussel Potomida littoralis (Cuvier, 1798) (Bivalvia: Unionidae).

Digging deeper: new gene order rearrangements and distinct patterns of codons usage in mitochondrial genomes among shrimps from the Axiidea, Gebiidea and Caridea (Crustacea: Decapoda)

Impact of dengue virus (DENV) co-infection on clinical manifestations, disease severity and laboratory parameters

The complete mitogenome of Cherax monticola (Crustacea: Decapoda: Parastacidae), a large highland crayfish from New Guinea

Whole genome sequencing and analysis reveal insights into the genetic structure, diversity and evolutionary relatedness of luxI and luxR homologs in bacteria belonging to the Sphingomonadaceae family

Identification of an rsh gene from a Novosphingobium sp. necessary for quorum-sensing signal accumulation

Identification of genes involved in the 4-aminobenzenesulfonate degradation pathway of Hydrogenophaga sp. PBC via transposon mutagenesis

Genome sequence of Novosphingobium sp. strain Rr 2-17, a nopaline crown gall-associated bacterium isolated from Vitis vinifera L. grapevine

Field calibration of blowfly-derived DNA against traditional methods for assessing mammal diversity in tropical forests

Whole-genome sequences of 13 endophytic bacteria isolated from shrub willow (salix) grown in geneva, new york

The complete genome sequence of EC1-UPM, a novel N4-like bacteriophage that infects Escherichia coli O78:K80

Draft genome sequence of Pantoea sp. strain A4, a Rafflesia-associated bacterium that produces N-acylhomoserine lactones as quorum-sensing molecules

Microbial succession and the functional potential during the fermentation of Chinese soy sauce brine

Whole Genome Sequencing of the Asian Arowana (Scleropages formosus) Provides Insights into the Evolution of Ray-Finned Fishes

Expansion and systematics redefinition of the most threatened freshwater mussel family, the Margaritiferidae

The complete mitogenome of the red claw crayfish Cherax quadricarinatus (Von Martens, 1868) (Crustacea: Decapoda: Parastacidae)

Whole-genome sequence of Cupriavidus sp. strain BIS7, a heavy-metal-resistant bacterium

Genome sequence of Roseomonas sp. strain B5, a quorum-quenching N-acylhomoserine lactone-degrading bacterium isolated from Malaysian tropical soil

Comparative genomics of closely related Salmonella enterica serovar Typhi strains reveals genome dynamics and the acquisition of novel pathogenic elements

The complete mitogenome of the freshwater crayfish Cherax cainii (Crustacea: Decapoda: Parastacidae)

Genome sequence of Aureobasidium pullulans AY4, an emerging opportunistic fungal pathogen with diverse biotechnological potential

Genome sequence of Hydrogenophaga sp. strain PBC, a 4-aminobenzenesulfonate-degrading bacterium

Global MLST of Salmonella Typhi Revisited in Post-genomic Era: Genetic Conservation, Population Structure, and Comparative Genomics of Rare Sequence Types.

Purifying selection and genetic drift shaped Pleistocene evolution of the mitochondrial genome in an endangered Australian freshwater fish

Quorum-sensing signal production by Agrobacterium vitis strains and their tumor-inducing and tartrate-catabolic plasmids.

The complete mitogenome of the hermit crab Clibanarius infraspinatus (Hilgendorf, 1869), (Crustacea; Decapoda; Diogenidae) – a new gene order for the Decapoda

Nanopore Long-Read Guided Complete Genome Assembly of Hydrogenophaga intermedia, and Genomic Insights into 4-Aminobenzenesulfonate, p-Aminobenzoic Acid and Hydrogen Metabolism in the Genus Hydrogenophaga.

The first Margaritiferidae male (M-type) mitogenome: mitochondrial gene order as a potential character for determining higher-order phylogeny within Unionida (Bivalvia)

Elucidating the diet of the island flying fox (Pteropus hypomelanus) in Peninsular Malaysia through Illumina Next-Generation Sequencing

The complete mitogenome of the crayfish Cherax glaber (Crustacea: Decapoda: Parastacidae)

First comprehensive multi-tissue transcriptome of Cherax quadricarinatus (Decapoda: Parastacidae) reveals unexpected diversity of endogenous cellulase

In-silico Taxonomic Classification of 373 Genomes Reveals Species Misidentification and New Genospecies within the Genus Pseudomonas

Signatures of polygenic adaptation associated with climate across the range of a threatened fish species with high genetic connectivity.

Draft Genome Sequence of Clostridium perfringens Strain JJC, a Highly Efficient Hydrogen Producer Isolated from Landfill Leachate Sludge

L,L-diaminopimelate aminotransferase (DapL): a putative target for the development of narrow-spectrum antibacterial compounds.

Cloning and functional analysis of the genes coding for 4-aminobenzenesulfonate 3,4-dioxygenase from Hydrogenophaga sp. PBC.

The complete mitochondrial genome of the invasive house crow Corvus splendens (Passeriformes: Corvidae).