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Nonomuraea corallina sp. nov., isolated from coastal sediment in Samila Beach, Thailand: insights into secondary metabolite synthesis as anticancer potential
A novel marine actinomycete, designated strain MCN248(T), was isolated from the coastal sediment in Songkhla Province, Thailand. Based on the 16S rRNA gene sequences, the new isolate was closely related to Nonomuraea harbinensis DSM45887(T) (99.2%) and Nonomuraea ferruginea DSM43553(T) (98.6%). Phyl...
Autores principales: | , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
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Frontiers Media S.A.
2023
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10694255/ http://dx.doi.org/10.3389/fmicb.2023.1226945 |
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author | Ngamcharungchit, Chananan Matsumoto, Atsuko Suriyachadkun, Chanwit Panbangred, Watanalai Inahashi, Yuki Intra, Bungonsiri |
author_facet | Ngamcharungchit, Chananan Matsumoto, Atsuko Suriyachadkun, Chanwit Panbangred, Watanalai Inahashi, Yuki Intra, Bungonsiri |
author_sort | Ngamcharungchit, Chananan |
collection | PubMed |
description | A novel marine actinomycete, designated strain MCN248(T), was isolated from the coastal sediment in Songkhla Province, Thailand. Based on the 16S rRNA gene sequences, the new isolate was closely related to Nonomuraea harbinensis DSM45887(T) (99.2%) and Nonomuraea ferruginea DSM43553(T) (98.6%). Phylogenetic analyzes based on the 16S rRNA gene sequences showed that strain MCN248(T) was clustered with Nonomuraea harbinensis DSM45887(T) and Nonomuraea ferruginea DSM43553(T). However, the digital DNA–DNA hybridization analyzes presented a low relatedness of 40.2% between strain MCN248(T) and the above closely related strains. This strain contained meso-diaminopimelic acid. The acyl type of the peptidoglycan was acetyl, and mycolic acids were absent. The major menaquinones were MK-9(H(2)) and MK-9(H(4)). The whole cell sugars consisted of madurose, ribose, mannose, and glucose. Diphosphatidylglycerol, hydroxyl-phosphatidylethanolamine, phosphatidylethanolamine, phosphatidylinositol, and phosphatidylglycerol were detected as the major phospholipids. The predominant cellular fatty acids were iso-C(16:0) (40.4%), 10-methyl-C(17:0) (22.1%), and C(17:1) [Formula: see text] 8c (10.9%). The DNA G + C content of the genomic DNA was 71.7%. With in silico analyzes, the antiSMASH platform uncovered a diverse 29 secondary metabolite biosynthesis arsenal, including non-ribosomal peptide synthetase (NRPS) and polyketide synthase (PKS) of strain MCN248(T), with a high prevalence of gene cluster encoding pathways for the production of anticancer and cytotoxic compounds. Consistently, the crude extract could inhibit colorectal HCT-116 cancer cells at a final concentration of 50 μg/mL. Based on the polyphasic approach, strain MCN248 was designated as a novel species of the genus Nonomuraea, for which the name Nonomuraea corallina sp. nov. is proposed. The type strain of the type species is MCN248(T) (=NBRC115966(T) = TBRC17110(T)). |
format | Online Article Text |
id | pubmed-10694255 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2023 |
publisher | Frontiers Media S.A. |
record_format | MEDLINE/PubMed |
spelling | pubmed-106942552023-12-05 Nonomuraea corallina sp. nov., isolated from coastal sediment in Samila Beach, Thailand: insights into secondary metabolite synthesis as anticancer potential Ngamcharungchit, Chananan Matsumoto, Atsuko Suriyachadkun, Chanwit Panbangred, Watanalai Inahashi, Yuki Intra, Bungonsiri Front Microbiol Microbiology A novel marine actinomycete, designated strain MCN248(T), was isolated from the coastal sediment in Songkhla Province, Thailand. Based on the 16S rRNA gene sequences, the new isolate was closely related to Nonomuraea harbinensis DSM45887(T) (99.2%) and Nonomuraea ferruginea DSM43553(T) (98.6%). Phylogenetic analyzes based on the 16S rRNA gene sequences showed that strain MCN248(T) was clustered with Nonomuraea harbinensis DSM45887(T) and Nonomuraea ferruginea DSM43553(T). However, the digital DNA–DNA hybridization analyzes presented a low relatedness of 40.2% between strain MCN248(T) and the above closely related strains. This strain contained meso-diaminopimelic acid. The acyl type of the peptidoglycan was acetyl, and mycolic acids were absent. The major menaquinones were MK-9(H(2)) and MK-9(H(4)). The whole cell sugars consisted of madurose, ribose, mannose, and glucose. Diphosphatidylglycerol, hydroxyl-phosphatidylethanolamine, phosphatidylethanolamine, phosphatidylinositol, and phosphatidylglycerol were detected as the major phospholipids. The predominant cellular fatty acids were iso-C(16:0) (40.4%), 10-methyl-C(17:0) (22.1%), and C(17:1) [Formula: see text] 8c (10.9%). The DNA G + C content of the genomic DNA was 71.7%. With in silico analyzes, the antiSMASH platform uncovered a diverse 29 secondary metabolite biosynthesis arsenal, including non-ribosomal peptide synthetase (NRPS) and polyketide synthase (PKS) of strain MCN248(T), with a high prevalence of gene cluster encoding pathways for the production of anticancer and cytotoxic compounds. Consistently, the crude extract could inhibit colorectal HCT-116 cancer cells at a final concentration of 50 μg/mL. Based on the polyphasic approach, strain MCN248 was designated as a novel species of the genus Nonomuraea, for which the name Nonomuraea corallina sp. nov. is proposed. The type strain of the type species is MCN248(T) (=NBRC115966(T) = TBRC17110(T)). Frontiers Media S.A. 2023-11-20 /pmc/articles/PMC10694255/ http://dx.doi.org/10.3389/fmicb.2023.1226945 Text en Copyright © 2023 Ngamcharungchit, Matsumoto, Suriyachadkun, Panbangred, Inahashi and Intra. https://creativecommons.org/licenses/by/4.0/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. |
spellingShingle | Microbiology Ngamcharungchit, Chananan Matsumoto, Atsuko Suriyachadkun, Chanwit Panbangred, Watanalai Inahashi, Yuki Intra, Bungonsiri Nonomuraea corallina sp. nov., isolated from coastal sediment in Samila Beach, Thailand: insights into secondary metabolite synthesis as anticancer potential |
title | Nonomuraea corallina sp. nov., isolated from coastal sediment in Samila Beach, Thailand: insights into secondary metabolite synthesis as anticancer potential |
title_full | Nonomuraea corallina sp. nov., isolated from coastal sediment in Samila Beach, Thailand: insights into secondary metabolite synthesis as anticancer potential |
title_fullStr | Nonomuraea corallina sp. nov., isolated from coastal sediment in Samila Beach, Thailand: insights into secondary metabolite synthesis as anticancer potential |
title_full_unstemmed | Nonomuraea corallina sp. nov., isolated from coastal sediment in Samila Beach, Thailand: insights into secondary metabolite synthesis as anticancer potential |
title_short | Nonomuraea corallina sp. nov., isolated from coastal sediment in Samila Beach, Thailand: insights into secondary metabolite synthesis as anticancer potential |
title_sort | nonomuraea corallina sp. nov., isolated from coastal sediment in samila beach, thailand: insights into secondary metabolite synthesis as anticancer potential |
topic | Microbiology |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10694255/ http://dx.doi.org/10.3389/fmicb.2023.1226945 |
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