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Article ; Online: Nanoscale resolution of microbial fiber degradation in action.

Tatli, Meltem / Moraïs, Sarah / Tovar-Herrera, Omar E / Bomble, Yannick J / Bayer, Edward A / Medalia, Ohad / Mizrahi, Itzhak

eLife

2022 Volume 11

Abstract: The lives of microbes unfold at the micron scale, and their molecular machineries operate at the nanoscale. Their study at these resolutions is key toward achieving a better understanding of their ecology. We focus on cellulose degradation of the ... ...

Abstract	The lives of microbes unfold at the micron scale, and their molecular machineries operate at the nanoscale. Their study at these resolutions is key toward achieving a better understanding of their ecology. We focus on cellulose degradation of the canonical
MeSH term(s)	Bacterial Proteins/metabolism ; Carbohydrate Metabolism ; Cellulose/metabolism ; Cellulosomes/metabolism ; Clostridium thermocellum ; Dietary Fiber/metabolism ; Hydrolysis
Chemical Substances	Bacterial Proteins ; Dietary Fiber ; Cellulose (9004-34-6)
Language	English
Publishing date	2022-05-31
Publishing country	England
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	2687154-3
ISSN	2050-084X ; 2050-084X
ISSN (online)	2050-084X
ISSN	2050-084X
DOI	10.7554/eLife.76523
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Article: Mechanisms of plant cell wall surveillance in response to pathogens, cell wall-derived ligands and the effect of expansins to infection resistance or susceptibility.

Narváez-Barragán, Delia A / Tovar-Herrera, Omar E / Guevara-García, Arturo / Serrano, Mario / Martinez-Anaya, Claudia

Frontiers in plant science

2022 Volume 13, Page(s) 969343

Abstract: Cell wall integrity is tightly regulated and maintained given that non-physiological modification of cell walls could render plants vulnerable to biotic and/or abiotic stresses. Expansins are plant cell wall-modifying proteins active during many ... ...

Abstract	Cell wall integrity is tightly regulated and maintained given that non-physiological modification of cell walls could render plants vulnerable to biotic and/or abiotic stresses. Expansins are plant cell wall-modifying proteins active during many developmental and physiological processes, but they can also be produced by bacteria and fungi during interaction with plant hosts. Cell wall alteration brought about by ectopic expression, overexpression, or exogenous addition of expansins from either eukaryote or prokaryote origin can in some instances provide resistance to pathogens, while in other cases plants become more susceptible to infection. In these circumstances altered cell wall mechanical properties might be directly responsible for pathogen resistance or susceptibility outcomes. Simultaneously, through membrane receptors for enzymatically released cell wall fragments or by sensing modified cell wall barrier properties, plants trigger intracellular signaling cascades inducing defense responses and reinforcement of the cell wall, contributing to various infection phenotypes, in which expansins might also be involved. Here, we review the plant immune response activated by cell wall surveillance mechanisms, cell wall fragments identified as responsible for immune responses, and expansin's roles in resistance and susceptibility of plants to pathogen attack.
Language	English
Publishing date	2022-08-23
Publishing country	Switzerland
Document type	Journal Article ; Review
ZDB-ID	2613694-6
ISSN	1664-462X
ISSN	1664-462X
DOI	10.3389/fpls.2022.969343
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Article ; Online: Expansin-related proteins: biology, microbe-plant interactions and associated plant-defense responses.

Narváez-Barragán, Delia A / Tovar-Herrera, Omar E / Segovia, Lorenzo / Serrano, Mario / Martinez-Anaya, Claudia

Microbiology (Reading, England)

2020 Volume 166, Issue 11, Page(s) 1007–1018

Abstract: Expansins, cerato-platanins and swollenins (which we will henceforth refer to as expansin-related proteins) are a group of microbial proteins involved in microbe-plant interactions. Although they share very low sequence similarity, some of their ... ...

Abstract	Expansins, cerato-platanins and swollenins (which we will henceforth refer to as expansin-related proteins) are a group of microbial proteins involved in microbe-plant interactions. Although they share very low sequence similarity, some of their composing domains are near-identical at the structural level. Expansin-related proteins have their target in the plant cell wall, in which they act through a non-enzymatic, but still uncharacterized, mechanism. In most cases, mutagenesis of expansin-related genes affects plant colonization or plant pathogenesis of different bacterial and fungal species, and thus, in many cases they are considered virulence factors. Additionally, plant treatment with expansin-related proteins activate several plant defenses resulting in the priming and protection towards subsequent pathogen encounters. Plant-defence responses induced by these proteins are reminiscent of pattern-triggered immunity or hypersensitive response in some cases. Plant immunity to expansin-related proteins could be caused by the following: (i) protein detection by specific host-cell receptors, (ii) alterations to the cell-wall-barrier properties sensed by the host, (iii) displacement of cell-wall polysaccharides detected by the host. Expansin-related proteins may also target polysaccharides on the wall of the microbes that produced them under certain physiological instances. Here, we review biochemical, evolutionary and biological aspects of these relatively understudied proteins and different immune responses they induce in plant hosts.
MeSH term(s)	Bacterial Proteins/chemistry ; Bacterial Proteins/genetics ; Bacterial Proteins/metabolism ; Cell Wall/metabolism ; Evolution, Molecular ; Fungal Proteins/chemistry ; Fungal Proteins/genetics ; Fungal Proteins/metabolism ; Host Microbial Interactions ; Plant Cells/metabolism ; Plant Diseases/microbiology ; Plant Immunity ; Plant Proteins/chemistry ; Plant Proteins/genetics ; Plant Proteins/metabolism
Chemical Substances	Bacterial Proteins ; Fungal Proteins ; Plant Proteins ; expansin protein, plant
Language	English
Publishing date	2020-11-02
Publishing country	England
Document type	Journal Article ; Research Support, Non-U.S. Gov't ; Review
ZDB-ID	1180712-x
ISSN	1465-2080 ; 1350-0872
ISSN (online)	1465-2080
ISSN	1350-0872
DOI	10.1099/mic.0.000984
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Article ; Online: Analysis of two Mexican Pectobacterium brasiliense strains reveals an inverted relationship between c-di-GMP levels with exopolysaccharide production and swarming motility.

Narváez-Barragán, Delia A / de Sandozequi, Andrés / Rodríguez, Mabel / Estrada, Karel / Tovar-Herrera, Omar E / Martínez-Anaya, Claudia

Microbiological research

2020 Volume 235, Page(s) 126427

Abstract: Pectobacterium is a diverse genus of phytopathogenic species from soil and water that cause infection either to restricted or multiple plant hosts. Phylogenetic analysis and metabolic fingerprinting of large numbers of genomes have expanded ... ...

Abstract	Pectobacterium is a diverse genus of phytopathogenic species from soil and water that cause infection either to restricted or multiple plant hosts. Phylogenetic analysis and metabolic fingerprinting of large numbers of genomes have expanded classification of Pectobacterium members. Pectobacterium brasiliense sp. nov has been elevated to the species level having detached from P. carotovorum. Here we present two P. brasiliense strains BF20 and BF45 isolated in Mexico from Opuntia and tobacco, respectively, which cluster into two different groups in whole genome comparisons with other Pectobacterium. We found that BF20 and BF45 strains are phenotypically different as BF45 showed more severe and rapid symptoms in comparison to BF20 in the host models celery and broccoli. Both strains produced similar levels of the main autoinducers, but BF45 shows an additional low abundant autoinducer compared to strain BF20. The two strains had different levels of c-di-GMP, which regulates the transition from motile to sessile lifestyle. In contrast to BF45, BF20 had the highest levels of c-di-GMP, was more motile (swarming), non-flocculant and less proficient in biofilm formation and exopolysaccharide production. Genomic comparisons revealed that differences in c-di-GMP accumulation and perhaps the associated phenotypes might be due to unique c-di-GMP metabolic genes in these two strains. Our results improve our understanding of the associations between phenotype and genotype and how this has shaped the physiology of Pectobacterium strains.
MeSH term(s)	Bacterial Proteins/genetics ; Biofilms/growth & development ; Cyclic GMP/analogs & derivatives ; Cyclic GMP/metabolism ; Genome, Bacterial ; Genomics ; Mexico ; Movement ; Opuntia/microbiology ; Pectobacterium/genetics ; Pectobacterium/physiology ; Phenotype ; Phylogeny ; Polysaccharides, Bacterial/biosynthesis ; Nicotiana/microbiology
Chemical Substances	Bacterial Proteins ; Polysaccharides, Bacterial ; bis(3',5')-cyclic diguanylic acid (61093-23-0) ; Cyclic GMP (H2D2X058MU)
Language	English
Publishing date	2020-02-19
Publishing country	Germany
Document type	Journal Article
ZDB-ID	1189614-0
ISSN	1618-0623 ; 0944-5013
ISSN (online)	1618-0623
ISSN	0944-5013
DOI	10.1016/j.micres.2020.126427
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Article: Analysis of two Mexican Pectobacterium brasiliense strains reveals an inverted relationship between c-di-GMP levels with exopolysaccharide production and swarming motility

Narváez-Barragán, Delia A / de Sandozequi, Andrés / Rodríguez, Mabel / Estrada, Karel / Tovar-Herrera, Omar E / Martínez-Anaya, Claudia

Microbiological research. 2020 May, v. 235

2020

Abstract	Pectobacterium is a diverse genus of phytopathogenic species from soil and water that cause infection either to restricted or multiple plant hosts. Phylogenetic analysis and metabolic fingerprinting of large numbers of genomes have expanded classification of Pectobacterium members. Pectobacterium brasiliense sp. nov has been elevated to the species level having detached from P. carotovorum. Here we present two P. brasiliense strains BF20 and BF45 isolated in Mexico from Opuntia and tobacco, respectively, which cluster into two different groups in whole genome comparisons with other Pectobacterium. We found that BF20 and BF45 strains are phenotypically different as BF45 showed more severe and rapid symptoms in comparison to BF20 in the host models celery and broccoli. Both strains produced similar levels of the main autoinducers, but BF45 shows an additional low abundant autoinducer compared to strain BF20. The two strains had different levels of c-di-GMP, which regulates the transition from motile to sessile lifestyle. In contrast to BF45, BF20 had the highest levels of c-di-GMP, was more motile (swarming), non-flocculant and less proficient in biofilm formation and exopolysaccharide production. Genomic comparisons revealed that differences in c-di-GMP accumulation and perhaps the associated phenotypes might be due to unique c-di-GMP metabolic genes in these two strains. Our results improve our understanding of the associations between phenotype and genotype and how this has shaped the physiology of Pectobacterium strains.
Keywords	Opuntia ; Pectobacterium carotovorum ; bacterial motility ; biofilm ; broccoli ; celery ; exopolysaccharides ; genes ; genomics ; genotype ; host plants ; models ; new species ; phenotype ; phylogeny ; physiology ; soil ; tobacco ; Mexico
Language	English
Dates of publication	2020-05
Publishing place	Elsevier GmbH
Document type	Article
ZDB-ID	1189614-0
ISSN	1618-0623 ; 0944-5013
ISSN (online)	1618-0623
ISSN	0944-5013
DOI	10.1016/j.micres.2020.126427
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Article ; Online: The underappreciated diversity of bile acid modifications.

Mohanty, Ipsita / Mannochio-Russo, Helena / Schweer, Joshua V / El Abiead, Yasin / Bittremieux, Wout / Xing, Shipei / Schmid, Robin / Zuffa, Simone / Vasquez, Felipe / Muti, Valentina B / Zemlin, Jasmine / Tovar-Herrera, Omar E / Moraïs, Sarah / Desai, Dhimant / Amin, Shantu / Koo, Imhoi / Turck, Christoph W / Mizrahi, Itzhak / Kris-Etherton, Penny M /

Petersen, Kristina S / Fleming, Jennifer A / Huan, Tao / Patterson, Andrew D / Siegel, Dionicio / Hagey, Lee R / Wang, Mingxun / Aron, Allegra T / Dorrestein, Pieter C

Cell

2024 Volume 187, Issue 7, Page(s) 1801–1818.e20

Abstract: The repertoire of modifications to bile acids and related steroidal lipids by host and microbial metabolism remains incompletely characterized. To address this knowledge gap, we created a reusable resource of tandem mass spectrometry (MS/MS) spectra by ... ...

Abstract	The repertoire of modifications to bile acids and related steroidal lipids by host and microbial metabolism remains incompletely characterized. To address this knowledge gap, we created a reusable resource of tandem mass spectrometry (MS/MS) spectra by filtering 1.2 billion publicly available MS/MS spectra for bile-acid-selective ion patterns. Thousands of modifications are distributed throughout animal and human bodies as well as microbial cultures. We employed this MS/MS library to identify polyamine bile amidates, prevalent in carnivores. They are present in humans, and their levels alter with a diet change from a Mediterranean to a typical American diet. This work highlights the existence of many more bile acid modifications than previously recognized and the value of leveraging public large-scale untargeted metabolomics data to discover metabolites. The availability of a modification-centric bile acid MS/MS library will inform future studies investigating bile acid roles in health and disease.
MeSH term(s)	Animals ; Humans ; Bile Acids and Salts/chemistry ; Metabolomics/methods ; Polyamines ; Tandem Mass Spectrometry/methods ; Gastrointestinal Microbiome ; Databases, Chemical
Chemical Substances	Bile Acids and Salts ; Polyamines
Language	English
Publishing date	2024-03-11
Publishing country	United States
Document type	Journal Article
ZDB-ID	187009-9
ISSN	1097-4172 ; 0092-8674
ISSN (online)	1097-4172
ISSN	0092-8674
DOI	10.1016/j.cell.2024.02.019
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Article ; Online: Expansin-like Exl1 from Pectobacterium is a virulence factor required for host infection, and induces a defence plant response involving ROS, and jasmonate, ethylene and salicylic acid signalling pathways in Arabidopsis thaliana.

Narváez-Barragán, Delia A / Tovar-Herrera, Omar E / Torres, Martha / Rodríguez, Mabel / Humphris, Sonia / Toth, Ian K / Segovia, Lorenzo / Serrano, Mario / Martínez-Anaya, Claudia

Scientific reports

2020 Volume 10, Issue 1, Page(s) 7747

Abstract: Expansins are encoded by some phytopathogenic bacteria and evidence indicates that they act as virulence factors for host infection. Here we analysed the expression of exl1 by Pectobacterium brasiliense and Pectobacterium atrosepticum. In both, exl1 gene ...

Abstract	Expansins are encoded by some phytopathogenic bacteria and evidence indicates that they act as virulence factors for host infection. Here we analysed the expression of exl1 by Pectobacterium brasiliense and Pectobacterium atrosepticum. In both, exl1 gene appears to be under quorum sensing control, and protein Exl1 can be observed in culture medium and during plant infection. Expression of exl1 correlates with pathogen virulence, where symptoms are reduced in a Δexl1 mutant strain of P. atrosepticum. As well as Δexl1 exhibiting less maceration of potato plants, fewer bacteria are observed at distance from the inoculation site. However, bacteria infiltrated into the plant tissue are as virulent as the wild type, suggesting that this is due to alterations in the initial invasion of the tissue. Additionally, swarming from colonies grown on MacConkey soft agar was delayed in the mutant in comparison to the wild type. We found that Exl1 acts on the plant tissue, probably by remodelling of a cell wall component or altering the barrier properties of the cell wall inducing a plant defence response, which results in the production of ROS and the induction of marker genes of the JA, ET and SA signalling pathways in Arabidopsis thaliana. Exl1 inactive mutants fail to trigger such responses. This defence response is protective against Pectobacterium brasiliense and Botrytis cinerea in more than one plant species.
MeSH term(s)	Arabidopsis/cytology ; Arabidopsis/immunology ; Arabidopsis/microbiology ; Cyclopentanes/metabolism ; Ethylenes/metabolism ; Gene Expression Regulation, Bacterial ; Host-Pathogen Interactions ; Oxylipins/metabolism ; Pectobacterium/cytology ; Pectobacterium/genetics ; Pectobacterium/metabolism ; Pectobacterium/physiology ; Quorum Sensing ; Reactive Oxygen Species/metabolism ; Salicylic Acid/metabolism ; Signal Transduction ; Virulence ; Virulence Factors/genetics ; Virulence Factors/metabolism
Chemical Substances	Cyclopentanes ; Ethylenes ; Oxylipins ; Reactive Oxygen Species ; Virulence Factors ; jasmonic acid (6RI5N05OWW) ; ethylene (91GW059KN7) ; Salicylic Acid (O414PZ4LPZ)
Language	English
Publishing date	2020-05-08
Publishing country	England
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	2615211-3
ISSN	2045-2322 ; 2045-2322
ISSN (online)	2045-2322
ISSN	2045-2322
DOI	10.1038/s41598-020-64529-9
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Article: Analysis of the Binding of Expansin Exl1, from

Tovar-Herrera, Omar E / Rodríguez, Mabel / Olarte-Lozano, Miguel / Sampedro-Guerrero, Jimmy Andrés / Guerrero, Adán / Pinto-Cámara, Raúl / Alvarado-Affantranger, Xóchitl / Wood, Christopher D / Moran-Mirabal, Jose M / Pastor, Nina / Segovia, Lorenzo / Martínez-Anaya, Claudia

ACS omega

2018 Volume 3, Issue 6, Page(s) 7008–7018

Abstract: The plant xylem is a preferred niche for some important bacterial phytopathogens, some of them encoding expansin proteins, which bind plant cell walls. Yet, the identity of the substrate for bacterial expansins within the plant cell wall and the nature ... ...

Abstract	The plant xylem is a preferred niche for some important bacterial phytopathogens, some of them encoding expansin proteins, which bind plant cell walls. Yet, the identity of the substrate for bacterial expansins within the plant cell wall and the nature of its interaction with it are poorly known. Here, we determined the localization of two bacterial expansins with differing isoelectric points (and with differing binding patterns to cell wall extracts) on plant tissue through in vitro fluorophore labeling and confocal imaging. Differential localization was observed, in which Exl1 from
Language	English
Publishing date	2018-06-28
Publishing country	United States
Document type	Journal Article
ISSN	2470-1343
ISSN	2470-1343
DOI	10.1021/acsomega.8b00406
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