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Article ; Online: Hyper-Production of Pullulan by a Novel Fungus of

Wang, Qin-Qing / Lin, Jia / Zhou, Qian-Zhi / Peng, Juan / Zhang, Qi / Wang, Jiang-Hai

International journal of molecular sciences

2023 Volume 25, Issue 1

Abstract: Pullulan, which is a microbial exopolysaccharide, has found widespread applications in foods, biomedicines, and cosmetics. Despite its versatility, most wild-type strains tend to yield low levels of pullulan production, and their mutants present genetic ... ...

Abstract	Pullulan, which is a microbial exopolysaccharide, has found widespread applications in foods, biomedicines, and cosmetics. Despite its versatility, most wild-type strains tend to yield low levels of pullulan production, and their mutants present genetic instability, achieving a limited increase in pullulan production. Therefore, mining new wild strains with robust pullulan-producing abilities remains an urgent concern. In this study, we found a novel strain, namely,
MeSH term(s)	Fermentation ; Aureobasidium ; Fungi ; Glucans
Chemical Substances	pullulan (8ZQ0AYU1TT) ; Glucans
Language	English
Publishing date	2023-12-25
Publishing country	Switzerland
Document type	Journal Article
ZDB-ID	2019364-6
ISSN	1422-0067 ; 1422-0067 ; 1661-6596
ISSN (online)	1422-0067
ISSN	1422-0067 ; 1661-6596
DOI	10.3390/ijms25010319
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Article ; Online: Broad-spectrum hydrocarbon-degrading microbes in the global ocean metagenomes.

Liu, Qing / Peng, Yongyi / Liao, Jing / Liu, Xinyue / Peng, Jiaxue / Wang, Jiang-Hai / Shao, Zongze

The Science of the total environment

2024 Volume 926, Page(s) 171746

Abstract: Understanding the diversity and functions of hydrocarbon-degrading microorganisms in marine environments is crucial for both advancing knowledge of biogeochemical processes and improving bioremediation methods. In this study, we leveraged nearly 20,000 ... ...

Abstract	Understanding the diversity and functions of hydrocarbon-degrading microorganisms in marine environments is crucial for both advancing knowledge of biogeochemical processes and improving bioremediation methods. In this study, we leveraged nearly 20,000 metagenome-assembled genomes (MAGs), recovered from a wide array of marine samples across the global oceans, to map the diversity of aerobic hydrocarbon-degrading microorganisms. A broad bacterial diversity was uncovered, with a notable preference for degrading aliphatic hydrocarbons over aromatic ones, primarily within Proteobacteria and Actinobacteriota. Three types of broad-spectrum hydrocarbon-degrading bacteria were identified for their ability to degrade various hydrocarbons and possession of multiple copies of hydrocarbon biodegradation genes. These bacteria demonstrate extensive metabolic versatility, aiding their survival and adaptability in diverse environmental conditions. Evidence of gene duplication and horizontal gene transfer in these microbes suggested a potential enhancement in the diversity of hydrocarbon-degrading bacteria. Positive correlations were observed between the abundances of hydrocarbon-degrading genes and environmental parameters such as temperature (-5 to 35 °C) and salinity (20 to 42 PSU). Overall, our findings offer valuable insights into marine hydrocarbon-degrading microorganisms and suggest considerations for selecting microbial strains for oil pollution remediation.
MeSH term(s)	Metagenome ; Hydrocarbons/metabolism ; Bacteria/genetics ; Bacteria/metabolism ; Biodegradation, Environmental ; Oceans and Seas ; Petroleum/metabolism
Chemical Substances	Hydrocarbons ; Petroleum
Language	English
Publishing date	2024-03-21
Publishing country	Netherlands
Document type	Journal Article
ZDB-ID	121506-1
ISSN	1879-1026 ; 0048-9697
ISSN (online)	1879-1026
ISSN	0048-9697
DOI	10.1016/j.scitotenv.2024.171746
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Article ; Online: Microplastics in remote coral reef environments of the Xisha Islands in the South China Sea: Source, accumulation and potential risk.

Lin, Jia / Zhao, Yuan-Ming / Zhan, Zhi-Geng / Zheng, Jia-Yuan / Zhou, Qian-Zhi / Peng, Juan / Li, Yan / Xiao, Xi / Wang, Jiang-Hai

Journal of hazardous materials

2024 Volume 469, Page(s) 133872

Abstract: Microplastics (MPs) are of great concern to coral health, particularly enhanced biotoxicity of small microplastics (< 100 µm) (SMPs). However, their fate and harm to remote coral reef ecosystems remain poorly elucidated. This work systematically ... ...

Abstract	Microplastics (MPs) are of great concern to coral health, particularly enhanced biotoxicity of small microplastics (< 100 µm) (SMPs). However, their fate and harm to remote coral reef ecosystems remain poorly elucidated. This work systematically investigated the distributions and features of MPs and SMPs in sediments from 13 islands/reefs of the Xisha Islands, the South China Sea for comprehensively deciphering their accumulation, sources and risk to coral reef ecosystems. The results show that both MPs (average, 682 items/kg) and SMPs (average, 375 items/kg) exhibit heterogeneous distributions, with accumulation within atolls and dispersion across fringing islands, which controlled by human activities and hydrodynamic conditions. Cluster analysis for the first time reveals a pronounced difference in their compositions between the southern and northern Xisha Islands and resultant distinct sources, i.e., MPs in the north part were leaked mainly from local domestic sewage and fishing waste, while in the south part were probably derived from industrial effluents from adjacent countries. Our ecological risk assessment suggests that the ecosystem within the Yongle Atoll is exposed to a high-risk of MPs pollution. The novel results and proposed framework facilitate to effectively manage and control MPs and accordingly preserve a fragile biosphere in remote coral reefs.
MeSH term(s)	Humans ; Coral Reefs ; Ecosystem ; Microplastics ; Plastics ; Environmental Monitoring ; China ; Water Pollutants, Chemical/toxicity ; Water Pollutants, Chemical/analysis
Chemical Substances	Microplastics ; Plastics ; Water Pollutants, Chemical
Language	English
Publishing date	2024-02-24
Publishing country	Netherlands
Document type	Journal Article
ZDB-ID	1491302-1
ISSN	1873-3336 ; 0304-3894
ISSN (online)	1873-3336
ISSN	0304-3894
DOI	10.1016/j.jhazmat.2024.133872
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Article ; Online: Metagenomic Views of Microbial Communities in Sand Sediments Associated with Coral Reefs

Dong, Xiyang / Lan, Haoyu / Huang, Liangtian / Zhang, Haikun / Lin, Xianbiao / Weng, Shengze / Peng, Yongyi / Lin, Jia / Wang, Jiang-hai / Peng, Juan / Yang, Ying

Microb Ecol. 2023 Feb., v. 85, no. 2 p.465-477

2023

Abstract: Reef sediments, the home for microbes with high abundances, provide an important source of carbonates and nutrients for the growth and maintenance of coral reefs. However, there is a lack of systematic research on the composition of microbial community ... ...

Abstract	Reef sediments, the home for microbes with high abundances, provide an important source of carbonates and nutrients for the growth and maintenance of coral reefs. However, there is a lack of systematic research on the composition of microbial community in sediments of different geographic sites and their potential effect on nutrient recycling and health of the coral reef ecosystem. In combination of biogeochemical measurements with gene- and genome-centric metagenomics, we assessed microbial community compositions and functional diversity, as well as profiles of antibiotic resistance genes in surface sediments of 16 coral reef sites at different depths from the Xisha islands in the South China Sea. Reef sediment microbiomes are diverse and novel at lower taxonomic ranks, dominated by Proteobacteria and Planctomycetota. Most reef sediment bacteria potentially participate in biogeochemical cycling via oxidizing various organic and inorganic compounds as energy sources. High abundances of Proteobacteria (mostly Rhizobiales and Woeseiales) are metabolically flexible and contain rhodopsin genes. Various classes of antibiotic resistance genes, hosted by diverse bacterial lineages, were identified to confer resistance to multidrug, aminoglycoside, and other antibiotics. Overall, our findings expanded the understanding of reef sediment microbial ecology and provided insights for their link to the coral reef ecosystem health.
Keywords	Rhizobiales ; aminoglycosides ; antibiotic resistance ; coral reefs ; corals ; ecosystems ; energy ; environmental health ; functional diversity ; metagenomics ; microbial communities ; microbiome ; rhodopsin ; sand ; South China Sea
Language	English
Dates of publication	2023-02
Size	p. 465-477.
Publishing place	Springer US
Document type	Article ; Online
ZDB-ID	1462065-0
ISSN	1432-184X ; 0095-3628
ISSN (online)	1432-184X
ISSN	0095-3628
DOI	10.1007/s00248-021-01957-8
Database	NAL-Catalogue (AGRICOLA)

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Article: Multiple biomarkers for indicating changes of the organic matter source over the last decades in the Min-Zhe sediment zone, the East China Sea

Li, Yan / Lin, Jia / Xu, Xiang-Po / Liu, Jin-Zhong / Zhou, Qian-Zhi / Wang, Jiang-Hai

Ecological indicators. 2022 June, v. 139

2022

Abstract: The temporal variation of sedimentary organic matters (SOM) in the East China Sea (ECS) is not fully assessed due to the complicated natural and anthropogenic processes. In this study, the compositions and distributions of multi-biomarker indicators (n- ... ...

Abstract	The temporal variation of sedimentary organic matters (SOM) in the East China Sea (ECS) is not fully assessed due to the complicated natural and anthropogenic processes. In this study, the compositions and distributions of multi-biomarker indicators (n-alkanes, n-alkanols and specific sterols) in a long sediment core collected from the Min-Zhe fined-grained sediment zone of the ECS were systematically studied to reveal variations of SOM sources and phytoplankton records over the last decades. The results of n-alkanes and sterols have demonstrated that terrestrial plants are the dominant SOM source, with the mean proportion of 67%. The temporal variation of terrestrial to marine biomarker ratios (TMBR) agree well with that of the dominant n-alkanes and terrigenous/aquatic ratios (TAR), suggesting that the multi-biomarker indicators yield a better assessment of the SOM source input. The regular variations of terrestrial OM and phytoplankton signals during the past decades record the interaction among marine ecological effects, anthropogenic activities and natural processes (i.e., extreme climate events). As a whole, the elevated productivity of marine phytoplankton since 1952 (mainly caused by enhanced nutrient inputs owing to the intensified human activities) and the decline in the period of 2005–2011 (likely influenced by the water impoundment of the Three Gorges Dam in 2003) were well reconstructed on the basis of brassicasterol (B) and dinosterol (D) indicators in this study. The B/(B + D) ratios also reveal the changes of community structure as a result of variations in the nutrient structure controlled by anthropogenic forcing. Notably, the anomalous peak in the abundance of n-alkanes with the even carbon predominance in about 1990 is identified for the first time, which may occur at that time of the first heavy rainfall after a long drought and is probably of the origin of biomass/fossil fuel combustion.
Keywords	alkanes ; biomarkers ; biomass ; carbon ; climate ; community structure ; drought ; fossil fuels ; fuel combustion ; humans ; organic matter ; phytoplankton ; rain ; sediments ; sterols ; temporal variation ; East China Sea
Language	English
Dates of publication	2022-06
Publishing place	Elsevier Ltd
Document type	Article
ZDB-ID	2036774-0
ISSN	1872-7034 ; 1470-160X
ISSN (online)	1872-7034
ISSN	1470-160X
DOI	10.1016/j.ecolind.2022.108917
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Article: Removal of levofloxacin by an oleaginous microalgae Chromochloris zofingiensis in the heterotrophic mode of cultivation: Removal performance and mechanism

Peng, Juan / He, Yong-Yi / Zhang, Zhi-Yu / Chen, Xiao-Zhi / Jiang, Yun-Lin / Guo, Han / Yuan, Jian-Ping / Wang, Jiang-Hai

Journal of hazardous materials. 2022 Mar. 05, v. 425

2022

Abstract: Microalgae-based technology is an environmental-friendly and cost-effective method for treating antibiotics-contaminated wastewater. This work investigated the removal of levofloxacin (LEV) by an oleaginous microalgae Chromochloris zofingiensis under ... ...

Abstract	Microalgae-based technology is an environmental-friendly and cost-effective method for treating antibiotics-contaminated wastewater. This work investigated the removal of levofloxacin (LEV) by an oleaginous microalgae Chromochloris zofingiensis under photoautotrophic and heterotrophic conditions. The results showed that the significantly higher biomass production, accumulation of extracellular polymeric substance and LEV removal efficiency were achieved in heterotrophic C. zofingiensis compared with the photoautotrophic ones. The removal efficiencies under the heterotrophic condition were 97%, 88% and 76% at 1, 10, and 100 mg/L LEV, respectively. HPLC-MS/MS and RNA-Seq analyses suggested that LEV could be bioaccumulated and biodegraded by heterotrophic C. zofingiensis through the reactions of defluorination, hydroxylation, demethylation, ring cleavage, oxidation, dehydrogenation, denitrification, and decarboxylation. The chemical composition of the algal biomass obtained after LEV treatment indicated the potential of this alga for removing LEV from wastewaters and simultaneously producing biodiesel, astaxanthin, and other products. Collectively, this research shows that the heterotrophic C. zofingiensis can be identified as a promising candidate for removing LEV in wastewater remediation.
Keywords	astaxanthin ; biodiesel ; biomass production ; chemical composition ; cost effectiveness ; decarboxylation ; dehydrogenation ; demethylation ; denitrification ; hydroxylation ; levofloxacin ; microalgae ; oxidation ; polymers ; remediation ; sequence analysis ; wastewater
Language	English
Dates of publication	2022-0305
Publishing place	Elsevier B.V.
Document type	Article
ZDB-ID	1491302-1
ISSN	1873-3336 ; 0304-3894
ISSN (online)	1873-3336
ISSN	0304-3894
DOI	10.1016/j.jhazmat.2021.128036
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Article ; Online: The majority of microorganisms in gas hydrate-bearing subseafloor sediments ferment macromolecules.

Zhang, Chuwen / Fang, Yun-Xin / Yin, Xiuran / Lai, Hongfei / Kuang, Zenggui / Zhang, Tianxueyu / Xu, Xiang-Po / Wegener, Gunter / Wang, Jiang-Hai / Dong, Xiyang

Microbiome

2023 Volume 11, Issue 1, Page(s) 37

Abstract: Background: Gas hydrate-bearing subseafloor sediments harbor a large number of microorganisms. Within these sediments, organic matter and upward-migrating methane are important carbon and energy sources fueling a light-independent biosphere. However, ... ...

Abstract	Background: Gas hydrate-bearing subseafloor sediments harbor a large number of microorganisms. Within these sediments, organic matter and upward-migrating methane are important carbon and energy sources fueling a light-independent biosphere. However, the type of metabolism that dominates the deep subseafloor of the gas hydrate zone is poorly constrained. Here we studied the microbial communities in gas hydrate-rich sediments up to 49 m below the seafloor recovered by drilling in the South China Sea. We focused on distinct geochemical conditions and performed metagenomic and metatranscriptomic analyses to characterize microbial communities and their role in carbon mineralization. Results: Comparative microbial community analysis revealed that samples above and in sulfate-methane interface (SMI) zones were clearly distinguished from those below the SMI. Chloroflexota were most abundant above the SMI, whereas Caldatribacteriota dominated below the SMI. Verrucomicrobiota, Bathyarchaeia, and Hadarchaeota were similarly present in both types of sediment. The genomic inventory and transcriptional activity suggest an important role in the fermentation of macromolecules. In contrast, sulfate reducers and methanogens that catalyze the consumption or production of commonly observed chemical compounds in sediments are rare. Methanotrophs and alkanotrophs that anaerobically grow on alkanes were also identified to be at low abundances. The ANME-1 group actively thrived in or slightly below the current SMI. Members from Heimdallarchaeia were found to encode the potential for anaerobic oxidation of short-chain hydrocarbons. Conclusions: These findings indicate that the fermentation of macromolecules is the predominant energy source for microorganisms in deep subseafloor sediments that are experiencing upward methane fluxes. Video Abstract.
MeSH term(s)	Methane ; Alkanes ; Carbon ; China ; Chloroflexi
Chemical Substances	Methane (OP0UW79H66) ; Alkanes ; Carbon (7440-44-0)
Language	English
Publishing date	2023-03-02
Publishing country	England
Document type	Video-Audio Media ; Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	2697425-3
ISSN	2049-2618 ; 2049-2618
ISSN (online)	2049-2618
ISSN	2049-2618
DOI	10.1186/s40168-023-01482-5
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Article ; Online: Marine sediments harbor diverse archaea and bacteria with the potential for anaerobic hydrocarbon degradation via fumarate addition.

Zhang, Chuwen / Meckenstock, Rainer U / Weng, Shengze / Wei, Guangshan / Hubert, Casey R J / Wang, Jiang-Hai / Dong, Xiyang

FEMS microbiology ecology

2021 Volume 97, Issue 5

Abstract: Marine sediments can contain large amounts of alkanes and methylated aromatic hydrocarbons that are introduced by natural processes or anthropogenic activities. These compounds can be biodegraded by anaerobic microorganisms via enzymatic addition of ... ...

Abstract	Marine sediments can contain large amounts of alkanes and methylated aromatic hydrocarbons that are introduced by natural processes or anthropogenic activities. These compounds can be biodegraded by anaerobic microorganisms via enzymatic addition of fumarate. However, the identity and ecological roles of a significant fraction of hydrocarbon degraders containing fumarate-adding enzymes (FAE) in various marine sediments remains unknown. By combining phylogenetic reconstructions, protein homolog modelling, and functional profiling of publicly available metagenomes and genomes, 61 draft bacterial and archaeal genomes encoding anaerobic hydrocarbon degradation via fumarate addition were obtained. Besides Desulfobacterota (previously known as Deltaproteobacteria) that are well-known to catalyze these reactions, Chloroflexi are dominant FAE-encoding bacteria in hydrocarbon-impacted sediments, potentially coupling sulfate reduction or fermentation to anaerobic hydrocarbon degradation. Among Archaea, besides Archaeoglobi previously shown to have this capability, genomes of Heimdallarchaeota, Lokiarchaeota, Thorarchaeota and Thermoplasmata also suggest fermentative hydrocarbon degradation using archaea-type FAE. These bacterial and archaeal hydrocarbon degraders occur in a wide range of marine sediments, including high abundances of FAE-encoding Asgard archaea associated with natural seeps and subseafloor ecosystems. Our results expand the knowledge of diverse archaeal and bacterial lineages engaged in anaerobic degradation of alkanes and methylated aromatic hydrocarbons.
MeSH term(s)	Anaerobiosis ; Archaea/genetics ; Bacteria/genetics ; Fumarates ; Geologic Sediments ; Hydrocarbons ; Phylogeny
Chemical Substances	Fumarates ; Hydrocarbons
Language	English
Publishing date	2021-03-15
Publishing country	England
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	283722-5
ISSN	1574-6941 ; 0168-6496
ISSN (online)	1574-6941
ISSN	0168-6496
DOI	10.1093/femsec/fiab045
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Zs.A 2967: Show issues

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Article ; Online: Source Indication and Geochemical Significance of Sedimentary Organic Matters from the Xisha Area, the South China Sea.

Li, Yan / Zhou, Qian-Zhi / Xu, Xiang-Po / Fang, Yun-Xin / Liu, Jin-Zhong / Wang, Jiang-Hai

Molecules (Basel, Switzerland)

2021 Volume 26, Issue 22

Abstract: Although various geochemical and geophysical investigations have already indicated a great resource potential in the Xisha area of the South China Sea, the origin of organic matter and molecular evidence for tracing the migration of hydrocarbons from ... ...

Abstract	Although various geochemical and geophysical investigations have already indicated a great resource potential in the Xisha area of the South China Sea, the origin of organic matter and molecular evidence for tracing the migration of hydrocarbons from deep petroleum reservoirs are still lacking. In this study, systematic organic geochemical analyses, including bulk organic matter parameters and lipid biomarkers were performed for deep sediments from two cores. The C/N ratios and δ
Language	English
Publishing date	2021-11-11
Publishing country	Switzerland
Document type	Journal Article
ZDB-ID	1413402-0
ISSN	1420-3049 ; 1431-5165 ; 1420-3049
ISSN (online)	1420-3049
ISSN	1431-5165 ; 1420-3049
DOI	10.3390/molecules26226808
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Article ; Online: Removal of levofloxacin by an oleaginous microalgae Chromochloris zofingiensis in the heterotrophic mode of cultivation: Removal performance and mechanism.

Peng, Juan / He, Yong-Yi / Zhang, Zhi-Yu / Chen, Xiao-Zhi / Jiang, Yun-Lin / Guo, Han / Yuan, Jian-Ping / Wang, Jiang-Hai

Journal of hazardous materials

2021 Volume 425, Page(s) 128036

Abstract	Microalgae-based technology is an environmental-friendly and cost-effective method for treating antibiotics-contaminated wastewater. This work investigated the removal of levofloxacin (LEV) by an oleaginous microalgae Chromochloris zofingiensis under photoautotrophic and heterotrophic conditions. The results showed that the significantly higher biomass production, accumulation of extracellular polymeric substance and LEV removal efficiency were achieved in heterotrophic C. zofingiensis compared with the photoautotrophic ones. The removal efficiencies under the heterotrophic condition were 97%, 88% and 76% at 1, 10, and 100 mg/L LEV, respectively. HPLC-MS/MS and RNA-Seq analyses suggested that LEV could be bioaccumulated and biodegraded by heterotrophic C. zofingiensis through the reactions of defluorination, hydroxylation, demethylation, ring cleavage, oxidation, dehydrogenation, denitrification, and decarboxylation. The chemical composition of the algal biomass obtained after LEV treatment indicated the potential of this alga for removing LEV from wastewaters and simultaneously producing biodiesel, astaxanthin, and other products. Collectively, this research shows that the heterotrophic C. zofingiensis can be identified as a promising candidate for removing LEV in wastewater remediation.
MeSH term(s)	Biofuels ; Biomass ; Chlorella ; Extracellular Polymeric Substance Matrix ; Levofloxacin ; Microalgae ; Tandem Mass Spectrometry
Chemical Substances	Biofuels ; Levofloxacin (6GNT3Y5LMF)
Language	English
Publishing date	2021-12-08
Publishing country	Netherlands
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	1491302-1
ISSN	1873-3336 ; 0304-3894
ISSN (online)	1873-3336
ISSN	0304-3894
DOI	10.1016/j.jhazmat.2021.128036
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