Metagenomic insights into the phylogenetic and functional profiles of soil microbiome from a managed mangrove in Malaysia

Priya, Gunaselvam; Lau, Nyok-Sean; Furusawa, Go; Balachandra, Dinesh; Yeok, Foong Swee; Amirul, Al-Ashraf Abdullah

doi:10.1016/j.aggene.2018.07.001

Cited by 36 publications

(28 citation statements)

References 63 publications

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“…Many of them are associated with ecologically important roles such as nitrogen fixation, phosphate solubilising, sulphate reducing, enzyme producing, photosynthetic anoxygenic, and methanogenic [90,91] . Based on previous research findings, the bacterial assemblages which dominated the mangrove ecosystems include phyla Proteobacteria, Actinobacteria, Firmicutes, Bacteroidetes, Chloroflexi, Acidobacteria, Cyanobacteria, Nitrospirae, Fusobacteria, and Planctomycetes [92][93][94][95][96] .…”

Section: Bacterial Diversity Of Mangrovementioning

confidence: 92%

A Review on Mangrove Actinobacterial Diversity: The Roles of Streptomyces and Novel Species Discovery

Law¹,

Pusparajah²,

Mutalib³

et al. 2019

Prog Micobes Mol Biol

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In the class Actinobacteria, the renowned genus Streptomyces comprised of a group of uniquely complex bacteria that capable of synthesizing a great variety of bioactive metabolites. Streptomycetes are noted to possess several special qualities such as multicellular life cycle and large linearized chromosomes. The significant contribution of Streptomyces in microbial drug discovery as witnessed through the discovery of many important antibiotic drugs has undeniably encourage the exploration of these bacteria from different environments, especially the mangrove environments. This review emphasizes on the genus Streptomyces and reports on the diversity of actinobacterial population from mangroves at different regions of the world as well as discovery of mangrove-derived novel Streptomyces species. Overall, the research on diversity of Actinobacteria in the mangrove environments remains limited. A total of 19 novel Streptomyces spp. isolated from mangroves between the year 2009 - early 2019, notably from China, India, Malaysia, and Thailand. Hence, it will be worthwhile to encourage the study of these bacteria from mangroves of different locations.

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Section: Bacterial Diversity Of Mangrovementioning

confidence: 92%

A Review on Mangrove Actinobacterial Diversity: The Roles of Streptomyces and Novel Species Discovery

Law¹,

Pusparajah²,

Mutalib³

et al. 2019

Prog Micobes Mol Biol

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“…Functional metagenomic analysis on two different Brazilian mangroves, a preserved mangrove in Rio de Janeiro state, Ilha Grande and peri-urban mangrove area, Bahia state, Porto Seguro were conducted, by Thompson and colleagues, and many endo-1,4-Dglucanase, 1,4-β-cellobiosidase and β-glucosidase genes were found (Thompson et al 2013). Our group also conducted functional metagenomic analysis on the best sustainably-managed mangrove forest, Matang Mangrove Forest Reserve (MMFR) in Malaysia (Priya et al 2018). In this study, we focused on two sites, Virgin Jungle Forest (VJF) and Productive Zone (PV).…”

Section: Degradation Mechanisms Of Cellulose Hemicellulose and Pectinmentioning

confidence: 99%

“…Based on metagenomic approach, Mendes and Tsai (2018) reported that taxonomic and functional diversity in mangrove soil is higher than that of Atlantic Forest (seasonal moist and dry broadleaf forest) and restinga (moist broadleaf forest) soils in Brazil. In addition, more than 94% of sequencing reads from mangrove metagenomes from Brazil, India, Malaysia and Saudi Arabia were assigned to the domain Bacteria (Alzubaidy et al 2016;Imchen et al 2017;Priya et al 2018). Bray and Gorham (1964) suggested that mangrove forests have higher rates of litter production than temperate forest.…”

Section: Introductionmentioning

confidence: 99%

“…Therefore, the approaches are a powerful tool for studying microbial communities including uncultivable microorganisms. In the last decade, metagenomic approaches have been employed for isolating novel polysaccharide-degrading enzymes including cellulases from mangrove ecosystems (Li et al 2012;Mai et al 2014;Ottni et al 2017;Priya et al 2018;Thomson et al 2013).…”

Section: Introductionmentioning

confidence: 99%

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Invited Review: Biodiversity of Plant Polysaccharide-Degrading Bacteria in Mangrove Ecosystem

Furusawa¹

2019

TLSR

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“…The mangrove ecological system is made up of mangrove communities and their ambient environment. The structure and function of this ecological system combines marine and terrestrial properties but also has its own unique features: (1) the soil has deoxidized characteristics; (2) there is a higher salinity and salinization trend; (3) a lower pH value and higher acidity; and (4) a higher content of organic matter [2]. These systems are critical areas where biodiversity and valuable biological resources are very rich [3].…”

Section: Introductionmentioning

confidence: 99%

The Study of Microbial Diversity in Mangrove Wetland Ecological System Based on a 16S rDNA Library

Liu¹,

Tian²

2019

IJEMA

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The microbial resources in mangrove wetland ecological system are abundant because of their special characteristics. However traditional methods of isolation and culture alone cannot analyze the microbial diversity fully and so, in this study, a 16S rDNA library was constructed to analyze microbial diversity in the Fugong mangrove of the Jiulong River Estuary, Fujian Province, China. The total sediment DNA was extracted, a 16S rDNA library constructed, and the clones analyzed using the restriction fragment length polymorphism (RFLP) method. The 16S rDNA sequences of 50 clones which had a higher display frequency in the RFLP analysis were blasted with the sequences in GenBank. The results showed that the highest similarity of the sequence in clones was 100%, while the lowest was 88%. The dominant microbes from mangrove sediments in the 16S rDNA library belonged to the Proteobacteria (70%) including α-proteobacteria (6.0%), γ-proteobacteria (22.0%), δ-proteobacteria (10.0%) and ε-proteobacteria (32.0%). The other microbes were Bacteroidetes (8.0%), Planctomycetacia (2.0%), Actinobacteria (2.0%) and Verrucomicrobia (2.0%). Additional uncultured microorganisms as well as those whose classification information was unclear were also detected (16.0%). The results of this study indicated that more objective and comprehensive information of microbial diversity in mangrove wetland ecological system had been obtained. There is abundant microbial diversity and a large amount of unknown microbial resources in mangrove wetland ecological system, which could have a very important potential, and so there should be more research to explore and utilize these microbial and functional gene resources in mangrove wetland ecological system.

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Metagenomic insights into the phylogenetic and functional profiles of soil microbiome from a managed mangrove in Malaysia

Cited by 36 publications

References 63 publications

A Review on Mangrove Actinobacterial Diversity: The Roles of Streptomyces and Novel Species Discovery

A Review on Mangrove Actinobacterial Diversity: The Roles of Streptomyces and Novel Species Discovery

Invited Review: Biodiversity of Plant Polysaccharide-Degrading Bacteria in Mangrove Ecosystem

The Study of Microbial Diversity in Mangrove Wetland Ecological System Based on a 16S rDNA Library

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