Metagenome-assembled genome of a Chitinophaga sp. and its potential in plant biomass degradation, as well of affiliated Pandoraea and Labrys species

The prospection of new degrading enzymes of the plant cell wall has been the subject of many studies and is fundamental for industries, due to the great biotechnological importance of achieving a more efficient depolymerization conversion from plant polysaccharides to fermentable sugars, which are u...

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Published inWorld journal of microbiology & biotechnology Vol. 37; no. 9; p. 162
Main Authors Funnicelli, Michelli Inácio Gonçalves, Pinheiro, Daniel Guariz, Gomes-Pepe, Elisângela Soares, de Carvalho, Lucas Amoroso Lopes, Campanharo, João Carlos, Fernandes, Camila Cesário, Kishi, Luciano Takeshi, Carareto Alves, Lúcia Maria, de Macedo Lemos, Eliana Gertrudes
Format Journal Article
LanguageEnglish
Published Dordrecht Springer Netherlands 01.09.2021
Springer Nature B.V
Subjects
Alphaproteobacteria - classification
Alphaproteobacteria - genetics
Alphaproteobacteria - metabolism
Applied Microbiology
bacterial communities
Bacteroidetes - classification
Bacteroidetes - genetics
Bacteroidetes - metabolism
Bagasse
biobased products
Biochemistry
Biodegradation
Biodegradation, Environmental
Biofuels
Biomass
Biomedical and Life Sciences
Biotechnology
Burkholderiaceae - classification
Burkholderiaceae - genetics
Burkholderiaceae - metabolism
Cell walls
Chitinophaga
Contamination
Degradation
Depolymerization
Environmental Engineering/Biotechnology
Enzymes
fuel production
genome
Genome, Bacterial
Genomes
Hemicellulose
Labrys
Life Sciences
Lignin - metabolism
Metagenome
metagenomics
Microbiology
Original Paper
Pandoraea
Pectin
pectins
Phylogeny
phytomass
Plant biomass
Plants - microbiology
Polysaccharides
Saccharides
sequence analysis
Sugar
Sugarcane
sugarcane bagasse
Glycosil hidrolases
Hemicellulose
Genome assembly
Microorganism
Sugarcane
Online AccessGet full text

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Abstract The prospection of new degrading enzymes of the plant cell wall has been the subject of many studies and is fundamental for industries, due to the great biotechnological importance of achieving a more efficient depolymerization conversion from plant polysaccharides to fermentable sugars, which are useful not only for biofuel production but also for various bioproducts. Thus, we explored the shotgun metagenome data of a bacterial community (CB10) isolated from sugarcane bagasse and recovered three metagenome-assembled genomes (MAGs). The genomic distance analyses, along with phylogenetic analysis, revealed the presence of a putative novel Chitinophaga species, a Pandoraea nosoerga , and Labrys sp. isolate. The isolation process for each one of these bacterial lineages from the community was carried out in order to relate them with the MAGs. The recovered draft genomes have reasonable completeness (72.67–100%) and contamination (0.26–2.66%) considering the respective marker lineage for Chitinophaga (Bacteroidetes), Pandoraea (Burkholderiales), and Labrys (Rhizobiales). The in-vitro assay detected cellulolytic activity (endoglucanases) only for the isolate Chitinophaga , and its genome analysis revealed 319 CAZymes, of which 115 are classified as plant cell wall degrading enzymes, which can act in fractions of hemicellulose and pectin. Our study highlights the potential of this Chitinophaga isolate provides several plant-polysaccharide-degrading enzymes.
AbstractList The prospection of new degrading enzymes of the plant cell wall has been the subject of many studies and is fundamental for industries, due to the great biotechnological importance of achieving a more efficient depolymerization conversion from plant polysaccharides to fermentable sugars, which are useful not only for biofuel production but also for various bioproducts. Thus, we explored the shotgun metagenome data of a bacterial community (CB10) isolated from sugarcane bagasse and recovered three metagenome-assembled genomes (MAGs). The genomic distance analyses, along with phylogenetic analysis, revealed the presence of a putative novel Chitinophaga species, a Pandoraea nosoerga, and Labrys sp. isolate. The isolation process for each one of these bacterial lineages from the community was carried out in order to relate them with the MAGs. The recovered draft genomes have reasonable completeness (72.67-100%) and contamination (0.26-2.66%) considering the respective marker lineage for Chitinophaga (Bacteroidetes), Pandoraea (Burkholderiales), and Labrys (Rhizobiales). The in-vitro assay detected cellulolytic activity (endoglucanases) only for the isolate Chitinophaga, and its genome analysis revealed 319 CAZymes, of which 115 are classified as plant cell wall degrading enzymes, which can act in fractions of hemicellulose and pectin. Our study highlights the potential of this Chitinophaga isolate provides several plant-polysaccharide-degrading enzymes.The prospection of new degrading enzymes of the plant cell wall has been the subject of many studies and is fundamental for industries, due to the great biotechnological importance of achieving a more efficient depolymerization conversion from plant polysaccharides to fermentable sugars, which are useful not only for biofuel production but also for various bioproducts. Thus, we explored the shotgun metagenome data of a bacterial community (CB10) isolated from sugarcane bagasse and recovered three metagenome-assembled genomes (MAGs). The genomic distance analyses, along with phylogenetic analysis, revealed the presence of a putative novel Chitinophaga species, a Pandoraea nosoerga, and Labrys sp. isolate. The isolation process for each one of these bacterial lineages from the community was carried out in order to relate them with the MAGs. The recovered draft genomes have reasonable completeness (72.67-100%) and contamination (0.26-2.66%) considering the respective marker lineage for Chitinophaga (Bacteroidetes), Pandoraea (Burkholderiales), and Labrys (Rhizobiales). The in-vitro assay detected cellulolytic activity (endoglucanases) only for the isolate Chitinophaga, and its genome analysis revealed 319 CAZymes, of which 115 are classified as plant cell wall degrading enzymes, which can act in fractions of hemicellulose and pectin. Our study highlights the potential of this Chitinophaga isolate provides several plant-polysaccharide-degrading enzymes.
The prospection of new degrading enzymes of the plant cell wall has been the subject of many studies and is fundamental for industries, due to the great biotechnological importance of achieving a more efficient depolymerization conversion from plant polysaccharides to fermentable sugars, which are useful not only for biofuel production but also for various bioproducts. Thus, we explored the shotgun metagenome data of a bacterial community (CB10) isolated from sugarcane bagasse and recovered three metagenome-assembled genomes (MAGs). The genomic distance analyses, along with phylogenetic analysis, revealed the presence of a putative novel Chitinophaga species, a Pandoraea nosoerga , and Labrys sp. isolate. The isolation process for each one of these bacterial lineages from the community was carried out in order to relate them with the MAGs. The recovered draft genomes have reasonable completeness (72.67–100%) and contamination (0.26–2.66%) considering the respective marker lineage for Chitinophaga (Bacteroidetes), Pandoraea (Burkholderiales), and Labrys (Rhizobiales). The in-vitro assay detected cellulolytic activity (endoglucanases) only for the isolate Chitinophaga , and its genome analysis revealed 319 CAZymes, of which 115 are classified as plant cell wall degrading enzymes, which can act in fractions of hemicellulose and pectin. Our study highlights the potential of this Chitinophaga isolate provides several plant-polysaccharide-degrading enzymes.
The prospection of new degrading enzymes of the plant cell wall has been the subject of many studies and is fundamental for industries, due to the great biotechnological importance of achieving a more efficient depolymerization conversion from plant polysaccharides to fermentable sugars, which are useful not only for biofuel production but also for various bioproducts. Thus, we explored the shotgun metagenome data of a bacterial community (CB10) isolated from sugarcane bagasse and recovered three metagenome-assembled genomes (MAGs). The genomic distance analyses, along with phylogenetic analysis, revealed the presence of a putative novel Chitinophaga species, a Pandoraea nosoerga, and Labrys sp. isolate. The isolation process for each one of these bacterial lineages from the community was carried out in order to relate them with the MAGs. The recovered draft genomes have reasonable completeness (72.67–100%) and contamination (0.26–2.66%) considering the respective marker lineage for Chitinophaga (Bacteroidetes), Pandoraea (Burkholderiales), and Labrys (Rhizobiales). The in-vitro assay detected cellulolytic activity (endoglucanases) only for the isolate Chitinophaga, and its genome analysis revealed 319 CAZymes, of which 115 are classified as plant cell wall degrading enzymes, which can act in fractions of hemicellulose and pectin. Our study highlights the potential of this Chitinophaga isolate provides several plant-polysaccharide-degrading enzymes.
ArticleNumber 162
Author Campanharo, João Carlos
Carareto Alves, Lúcia Maria
Gomes-Pepe, Elisângela Soares
Fernandes, Camila Cesário
de Macedo Lemos, Eliana Gertrudes
Kishi, Luciano Takeshi
Pinheiro, Daniel Guariz
de Carvalho, Lucas Amoroso Lopes
Funnicelli, Michelli Inácio Gonçalves
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  givenname: João Carlos
  surname: Campanharo
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BackLink https://www.ncbi.nlm.nih.gov/pubmed/34448059$$D View this record in MEDLINE/PubMed
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ISSN 0959-3993
1573-0972
IngestDate Thu Jul 10 20:51:48 EDT 2025
Fri Jul 11 08:17:30 EDT 2025
Fri Jul 25 18:56:43 EDT 2025
Thu Apr 03 07:06:13 EDT 2025
Thu Apr 24 23:05:44 EDT 2025
Tue Jul 01 04:25:51 EDT 2025
Fri Feb 21 02:47:48 EST 2025
IsDoiOpenAccess false
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Issue 9
Keywords Glycosil hidrolases
Hemicellulose
Genome assembly
Microorganism
Sugarcane
Language English
License 2021. The Author(s), under exclusive licence to Springer Nature B.V.
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Snippet The prospection of new degrading enzymes of the plant cell wall has been the subject of many studies and is fundamental for industries, due to the great...
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SubjectTerms Alphaproteobacteria - classification
Alphaproteobacteria - genetics
Alphaproteobacteria - metabolism
Applied Microbiology
bacterial communities
Bacteroidetes - classification
Bacteroidetes - genetics
Bacteroidetes - metabolism
Bagasse
biobased products
Biochemistry
Biodegradation
Biodegradation, Environmental
Biofuels
Biomass
Biomedical and Life Sciences
Biotechnology
Burkholderiaceae - classification
Burkholderiaceae - genetics
Burkholderiaceae - metabolism
Cell walls
Chitinophaga
Contamination
Degradation
Depolymerization
Environmental Engineering/Biotechnology
Enzymes
fuel production
genome
Genome, Bacterial
Genomes
Hemicellulose
Labrys
Life Sciences
Lignin - metabolism
Metagenome
metagenomics
Microbiology
Original Paper
Pandoraea
Pectin
pectins
Phylogeny
phytomass
Plant biomass
Plants - microbiology
Polysaccharides
Saccharides
sequence analysis
Sugar
Sugarcane
sugarcane bagasse
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Title Metagenome-assembled genome of a Chitinophaga sp. and its potential in plant biomass degradation, as well of affiliated Pandoraea and Labrys species
URI https://link.springer.com/article/10.1007/s11274-021-03128-w
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