Assessing the diversity and biomedical potential of microbes associated with the Neptune's Cup sponge, Cliona patera

Marine sponges are known to host a complex microbial consortium that is essential to the health and resilience of these benthic invertebrates. These sponge-associated microbes are also an important source of therapeutic agents. The Neptune's Cup sponge, Cliona patera, once believed to be extinc...

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Main Authors: Ho, Xin Yi, Katermeran, Nursheena Parveen, Deignan, Lindsey Kane, Phyo, Ma Yadanar, Ong, Ji Fa Marshall, Goh, Jun Xian, Ng, Juat Ying, Tun, Karenne, Tan, Lik Tong
Other Authors: Singapore Centre for Environmental Life Sciences and Engineering
Format: Article
Language:English
Published: 2022
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Online Access:https://hdl.handle.net/10356/159369
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Institution: Nanyang Technological University
Language: English
id sg-ntu-dr.10356-159369
record_format dspace
institution Nanyang Technological University
building NTU Library
continent Asia
country Singapore
Singapore
content_provider NTU Library
collection DR-NTU
language English
topic Science::Geology
Bacterial Diversity
Quorum-Sensing Inhibition
spellingShingle Science::Geology
Bacterial Diversity
Quorum-Sensing Inhibition
Ho, Xin Yi
Katermeran, Nursheena Parveen
Deignan, Lindsey Kane
Phyo, Ma Yadanar
Ong, Ji Fa Marshall
Goh, Jun Xian
Ng, Juat Ying
Tun, Karenne
Tan, Lik Tong
Assessing the diversity and biomedical potential of microbes associated with the Neptune's Cup sponge, Cliona patera
description Marine sponges are known to host a complex microbial consortium that is essential to the health and resilience of these benthic invertebrates. These sponge-associated microbes are also an important source of therapeutic agents. The Neptune's Cup sponge, Cliona patera, once believed to be extinct, was rediscovered off the southern coast of Singapore in 2011. The chance discovery of this sponge presented an opportunity to characterize the prokaryotic community of C. patera. Sponge tissue samples were collected from the inner cup, outer cup and stem of C. patera for 16S rRNA amplicon sequencing. C. patera hosted 5,222 distinct OTUs, spanning 26 bacterial phyla, and 74 bacterial classes. The bacterial phylum Proteobacteria, particularly classes Gammaproteobacteria and Alphaproteobacteria, dominated the sponge microbiome. Interestingly, the prokaryotic community structure differed significantly between the cup and stem of C. patera, suggesting that within C. patera there are distinct microenvironments. Moreover, the cup of C. patera had lower diversity and evenness as compared to the stem. Quorum sensing inhibitory (QSI) activities of selected sponge-associated marine bacteria were evaluated and their organic extracts profiled using the MS-based molecular networking platform. Of the 110 distinct marine bacterial strains isolated from sponge samples using culture-dependent methods, about 30% showed quorum sensing inhibitory activity. Preliminary identification of selected QSI active bacterial strains revealed that they belong mostly to classes Alphaproteobacteria and Bacilli. Annotation of the MS/MS molecular networkings of these QSI active organic extracts revealed diverse classes of natural products, including aromatic polyketides, siderophores, pyrrolidine derivatives, indole alkaloids, diketopiperazines, and pyrone derivatives. Moreover, potential novel compounds were detected in several strains as revealed by unique molecular families present in the molecular networks. Further research is required to determine the temporal stability of the microbiome of the host sponge, as well as mining of associated bacteria for novel QS inhibitors.
author2 Singapore Centre for Environmental Life Sciences and Engineering
author_facet Singapore Centre for Environmental Life Sciences and Engineering
Ho, Xin Yi
Katermeran, Nursheena Parveen
Deignan, Lindsey Kane
Phyo, Ma Yadanar
Ong, Ji Fa Marshall
Goh, Jun Xian
Ng, Juat Ying
Tun, Karenne
Tan, Lik Tong
format Article
author Ho, Xin Yi
Katermeran, Nursheena Parveen
Deignan, Lindsey Kane
Phyo, Ma Yadanar
Ong, Ji Fa Marshall
Goh, Jun Xian
Ng, Juat Ying
Tun, Karenne
Tan, Lik Tong
author_sort Ho, Xin Yi
title Assessing the diversity and biomedical potential of microbes associated with the Neptune's Cup sponge, Cliona patera
title_short Assessing the diversity and biomedical potential of microbes associated with the Neptune's Cup sponge, Cliona patera
title_full Assessing the diversity and biomedical potential of microbes associated with the Neptune's Cup sponge, Cliona patera
title_fullStr Assessing the diversity and biomedical potential of microbes associated with the Neptune's Cup sponge, Cliona patera
title_full_unstemmed Assessing the diversity and biomedical potential of microbes associated with the Neptune's Cup sponge, Cliona patera
title_sort assessing the diversity and biomedical potential of microbes associated with the neptune's cup sponge, cliona patera
publishDate 2022
url https://hdl.handle.net/10356/159369
_version_ 1736856390990823424
spelling sg-ntu-dr.10356-1593692022-06-18T20:11:32Z Assessing the diversity and biomedical potential of microbes associated with the Neptune's Cup sponge, Cliona patera Ho, Xin Yi Katermeran, Nursheena Parveen Deignan, Lindsey Kane Phyo, Ma Yadanar Ong, Ji Fa Marshall Goh, Jun Xian Ng, Juat Ying Tun, Karenne Tan, Lik Tong Singapore Centre for Environmental Life Sciences and Engineering Science::Geology Bacterial Diversity Quorum-Sensing Inhibition Marine sponges are known to host a complex microbial consortium that is essential to the health and resilience of these benthic invertebrates. These sponge-associated microbes are also an important source of therapeutic agents. The Neptune's Cup sponge, Cliona patera, once believed to be extinct, was rediscovered off the southern coast of Singapore in 2011. The chance discovery of this sponge presented an opportunity to characterize the prokaryotic community of C. patera. Sponge tissue samples were collected from the inner cup, outer cup and stem of C. patera for 16S rRNA amplicon sequencing. C. patera hosted 5,222 distinct OTUs, spanning 26 bacterial phyla, and 74 bacterial classes. The bacterial phylum Proteobacteria, particularly classes Gammaproteobacteria and Alphaproteobacteria, dominated the sponge microbiome. Interestingly, the prokaryotic community structure differed significantly between the cup and stem of C. patera, suggesting that within C. patera there are distinct microenvironments. Moreover, the cup of C. patera had lower diversity and evenness as compared to the stem. Quorum sensing inhibitory (QSI) activities of selected sponge-associated marine bacteria were evaluated and their organic extracts profiled using the MS-based molecular networking platform. Of the 110 distinct marine bacterial strains isolated from sponge samples using culture-dependent methods, about 30% showed quorum sensing inhibitory activity. Preliminary identification of selected QSI active bacterial strains revealed that they belong mostly to classes Alphaproteobacteria and Bacilli. Annotation of the MS/MS molecular networkings of these QSI active organic extracts revealed diverse classes of natural products, including aromatic polyketides, siderophores, pyrrolidine derivatives, indole alkaloids, diketopiperazines, and pyrone derivatives. Moreover, potential novel compounds were detected in several strains as revealed by unique molecular families present in the molecular networks. Further research is required to determine the temporal stability of the microbiome of the host sponge, as well as mining of associated bacteria for novel QS inhibitors. Ministry of Education (MOE) National Research Foundation (NRF) Published version This study was supported by the NParks-Marine Invert grant, the National Research Foundation, Prime Minister’s Office, Singapore under its Marine Science Research and Development Programme (award nos. MSRDP-P15 and MSRDP-P34) and the Ministry of Education, Singapore under its Research Centre of Excellence Program to the Singapore Centre for Environmental Life Sciences Engineering, Nanyang Technological University. 2022-06-15T06:07:12Z 2022-06-15T06:07:12Z 2021 Journal Article Ho, X. Y., Katermeran, N. P., Deignan, L. K., Phyo, M. Y., Ong, J. F. M., Goh, J. X., Ng, J. Y., Tun, K. & Tan, L. T. (2021). Assessing the diversity and biomedical potential of microbes associated with the Neptune's Cup sponge, Cliona patera. Frontiers in Microbiology, 12, 631445-. https://dx.doi.org/10.3389/fmicb.2021.631445 1664-302X https://hdl.handle.net/10356/159369 10.3389/fmicb.2021.631445 34267732 2-s2.0-85110186909 12 631445 en MSRDP-P15 MSRDP-P34 Frontiers in Microbiology © 2021 Ho, Katermeran, Deignan, Phyo, Ong, Goh, Ng, Tun and Tan. This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms. application/pdf