- Carbohydrate metabolism genes dominant in a subtropical marine mangrove ecosystem revealed by metagenomics analysis
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Huaxian Zhao , Bing Yan , Shuming Mo , Shiqing Nie , Quanwen Li , Qian Ou , Bo Wu , Gonglingxia Jiang , Jinli Tang , Nan Li , Chengjian Jiang
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J. Microbiol. 2019;57(7):575-586. Published online June 27, 2019
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DOI: https://doi.org/10.1007/s12275-019-8679-5
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Mangrove sediment microorganisms play a vital role in the
energy transformation and element cycling in marine wetland
ecosystems. Using metagenomics analysis strategy, we
compared the taxonomic structure and gene profile of the
mangrove and non-mangrove sediment samples at the subtropical
estuary in Beibu Gulf, South China Sea. Proteobacteria,
Bacteroidetes, and Firmicutes were the most abundant
bacterial phyla. Archaeal family Methanosarcinaceae
and bacterial genera Vibrio and Dehalococcoides were significantly
higher in the mangrove sediments than in the nonmangrove
sediments. Functional analysis showed that “Carbohydrate
metabolism” was the most abundant metabolic
category. The feature of carbohydrate-active enzymes (CZs)
was analyzed using the Carbohydrate-Active EnZymes Database.
The significant differences of CZs between mangrove
and non-mangrove sediments, were attributed to the amounts
of polyphenol oxidase (EC 1.10.3.-), hexosyltransferase (EC
2.4.1.-), and β-N-acetylhexosaminidase (EC 3.2.1.52), which
were higher in the mangrove sediment samples. Principal
component analysis indicated that the microbial community
and gene profile between mangrove and non-mangrove sediments
were distinct. Redundancy analysis showed that total
organic carbon is a significant factor that affects the microbial
community and gene distribution. The results indicated
that the mangrove ecosystem with massive amounts of organic
carbon may promote the richness of carbohydrate metabolism
genes and enhance the degradation and utilization
of carbohydrates in the mangrove sediments.
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- Characterization of a Novel β-Glucosidase-Like Activity from a Soil Metagenome
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Chengjian Jiang , Gefei Ma , Shuangxi Li , Tingting Hu , Zhiqun Che , Peihong Shen , Bing Yan , Bo Wu
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J. Microbiol. 2009;47(5):542-548. Published online October 24, 2009
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DOI: https://doi.org/10.1007/s12275-009-0024-y
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781
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Abstract
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We report the cloning of a novel β-glucosidase-like gene by function-based screening of a metagenomic library from uncultured soil microorganisms. The gene was named bgl1C and has an open reading frame of 1,443 base pairs. It encodes a 481 amino acid polypeptide with a predicted molecular mass of about 57.8 kDa. The deduced amino acid sequence did not show any homology with known β-glucosidases. The putative β-glucosidase gene was subcloned into the pETBlue-2 vector and overexpressed in E. coli Tuner (DE3) pLacІ; the recombinant protein was purified to homogeneity. Functional characterization with a high performance
liquid chromatography method demonstrated that the recombinant Bgl1C protein hydrolyzed D-glucosyl-β-(1-4)-D-glucose to glucose. The maximum activity for Bgl1C protein occurred at pH 8.0 and 42°C using p-nitrophenyl-β-D-glucoside as the substrate. A CaCl2 concentration of 1 mM was required for optimal activity. The putative β-glucosidase had an apparent Km value of 0.19 mM, a Vmax value of 4.75
U/mg and a kcat value of 316.7/min under the optimal reaction conditions. The biochemical characterization of Bgl1C has enlarged our understanding of the novel enzymes that can be isolated from the soil metagenome.
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- Archaeal Communities in Mangrove Soil Characterized by 16S rRNA Gene Clones
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Bing Yan , Kui Hong , Zi-Niu Yu
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J. Microbiol. 2006;44(5):566-571.
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DOI: https://doi.org/2439 [pii]
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Abstract
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An archaeal 16S rRNA gene library was constructed from mangrove soil. Phylogenetic analysis revealed archaea in mangrove soil including the Crenarchaeota (80.4%) and Euryarchaeota (19.6%) phyla. The archaeal community in mangrove soil appears to be a mixture of organisms found in a variety of environments with the majority being of marine origin.
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