Cover Image

Genome mining of Pseudomonas spp. hints towards the production of under-pitched secondary metabolites

The recent advances in omics and computational analysis have enabled the capacity to identify the exclusive strain-specific metabolites and novel biosynthetic gene clusters. This study analyzed eight strains of P. aurantiaca including GS1, GS3, GS4, GS6, GS7, FS2, ARS38, PBSt2, one strain of P. chlo...

Full description

Saved in:
Bibliographic Details
Main Authors: Shahid, Izzah, Han, Jun, Hanook, Sharoon, Borchers, Christoph H., El Enshasy, Hesham Ali, Mehnaz, Samina
Format: Article
Published: Springer Science and Business Media Deutschland GmbH 2023
Subjects:
TP Chemical technology
Online Access:http://eprints.utm.my/104852/
http://dx.doi.org/10.1007/s13205-023-03607-x
Tags: Add Tag
No Tags, Be the first to tag this record!
id my.utm.104852
record_format eprints
spelling my.utm.1048522024-06-30T00:45:16Z http://eprints.utm.my/104852/ Genome mining of Pseudomonas spp. hints towards the production of under-pitched secondary metabolites Shahid, Izzah Han, Jun Hanook, Sharoon Borchers, Christoph H. El Enshasy, Hesham Ali Mehnaz, Samina TP Chemical technology The recent advances in omics and computational analysis have enabled the capacity to identify the exclusive strain-specific metabolites and novel biosynthetic gene clusters. This study analyzed eight strains of P. aurantiaca including GS1, GS3, GS4, GS6, GS7, FS2, ARS38, PBSt2, one strain of P. chlororaphis RP4, one strain of P. aeruginosa (At1RP4), and one strain of P. fluorescens (RS1) for the production of rhamnolipids, quorum-sensing signals, and osmolytes. Seven rhamnolipid derivatives were variably detected in fluorescent pseudomonads. These rhamnolipids included Rha-C10-C8, Rha-Rha-C10-C10, Rha-C10-C12db, Rha-C10-C10, Rha-Rha-C10-C12, Rha-C10-C12, and Rha-Rha-C10-C12db. Pseudomonas spp. also showed the variable production of osmoprotectants including N-acetyl glutaminyl glutamine amide (NAGGN), betaine, ectoine, and trehalose. Betaine and ectoine were produced by all pseudomonads, however, NAGGN and trehalose were observed by five and three strains, respectively. Four strains including P. chlororaphis (RP4), P. aeruginosa (At1RP4), P. fluorescens (RS1), and P. aurantiaca (PBSt2) were exposed to 1– 4% NaCl concentrations and evaluated for the changes in phenazine production profile which were negligible. AntiSMASH 5.0 platform showed 50 biosynthetic gene clusters in PB-St2, of which 23 (45%) were classified as putative gene clusters with ClusterFinder algorithm, five (10%) were classified as non-ribosomal peptides synthetases (NRPS), five (10%) as saccharides, and four (8%) were classified as putative fatty acids. The genomic attributes and comprehensive insights into the metabolomic profile of these Pseudomonas spp. strains showcase their phytostimulatory, phyto-protective, and osmoprotective effects of diverse crops grown in normal and saline soils. Springer Science and Business Media Deutschland GmbH 2023 Article PeerReviewed Shahid, Izzah and Han, Jun and Hanook, Sharoon and Borchers, Christoph H. and El Enshasy, Hesham Ali and Mehnaz, Samina (2023) Genome mining of Pseudomonas spp. hints towards the production of under-pitched secondary metabolites. 3 Biotech, 13 (6). pp. 1-13. ISSN 2190-572X http://dx.doi.org/10.1007/s13205-023-03607-x DOI : 10.1007/s13205-023-03607-x
institution Universiti Teknologi Malaysia
building UTM Library
collection Institutional Repository
continent Asia
country Malaysia
content_provider Universiti Teknologi Malaysia
content_source UTM Institutional Repository
url_provider http://eprints.utm.my/
topic TP Chemical technology
spellingShingle TP Chemical technology
Shahid, Izzah
Han, Jun
Hanook, Sharoon
Borchers, Christoph H.
El Enshasy, Hesham Ali
Mehnaz, Samina
Genome mining of Pseudomonas spp. hints towards the production of under-pitched secondary metabolites
description The recent advances in omics and computational analysis have enabled the capacity to identify the exclusive strain-specific metabolites and novel biosynthetic gene clusters. This study analyzed eight strains of P. aurantiaca including GS1, GS3, GS4, GS6, GS7, FS2, ARS38, PBSt2, one strain of P. chlororaphis RP4, one strain of P. aeruginosa (At1RP4), and one strain of P. fluorescens (RS1) for the production of rhamnolipids, quorum-sensing signals, and osmolytes. Seven rhamnolipid derivatives were variably detected in fluorescent pseudomonads. These rhamnolipids included Rha-C10-C8, Rha-Rha-C10-C10, Rha-C10-C12db, Rha-C10-C10, Rha-Rha-C10-C12, Rha-C10-C12, and Rha-Rha-C10-C12db. Pseudomonas spp. also showed the variable production of osmoprotectants including N-acetyl glutaminyl glutamine amide (NAGGN), betaine, ectoine, and trehalose. Betaine and ectoine were produced by all pseudomonads, however, NAGGN and trehalose were observed by five and three strains, respectively. Four strains including P. chlororaphis (RP4), P. aeruginosa (At1RP4), P. fluorescens (RS1), and P. aurantiaca (PBSt2) were exposed to 1– 4% NaCl concentrations and evaluated for the changes in phenazine production profile which were negligible. AntiSMASH 5.0 platform showed 50 biosynthetic gene clusters in PB-St2, of which 23 (45%) were classified as putative gene clusters with ClusterFinder algorithm, five (10%) were classified as non-ribosomal peptides synthetases (NRPS), five (10%) as saccharides, and four (8%) were classified as putative fatty acids. The genomic attributes and comprehensive insights into the metabolomic profile of these Pseudomonas spp. strains showcase their phytostimulatory, phyto-protective, and osmoprotective effects of diverse crops grown in normal and saline soils.
format Article
author Shahid, Izzah
Han, Jun
Hanook, Sharoon
Borchers, Christoph H.
El Enshasy, Hesham Ali
Mehnaz, Samina
author_facet Shahid, Izzah
Han, Jun
Hanook, Sharoon
Borchers, Christoph H.
El Enshasy, Hesham Ali
Mehnaz, Samina
author_sort Shahid, Izzah
title Genome mining of Pseudomonas spp. hints towards the production of under-pitched secondary metabolites
title_short Genome mining of Pseudomonas spp. hints towards the production of under-pitched secondary metabolites
title_full Genome mining of Pseudomonas spp. hints towards the production of under-pitched secondary metabolites
title_fullStr Genome mining of Pseudomonas spp. hints towards the production of under-pitched secondary metabolites
title_full_unstemmed Genome mining of Pseudomonas spp. hints towards the production of under-pitched secondary metabolites
title_sort genome mining of pseudomonas spp. hints towards the production of under-pitched secondary metabolites
publisher Springer Science and Business Media Deutschland GmbH
publishDate 2023
url http://eprints.utm.my/104852/
http://dx.doi.org/10.1007/s13205-023-03607-x
_version_ 1803334978271969280
score 13.211869

Similar Items