Genotypic and Phenotypic Characterization of Pseudomonas atacamensis EMP42 a PGPR Strain Obtained from the Rhizosphere of Echinocactus platyacanthus (Sweet Barrel)
Plant growth-promoting rhizobacteria (PGPR) are a group of bacteria that associate with the rhizosphere of plants; one of the most abundant bacterial genera in this ecological niche is , which is constantly expanding due to the emergence of new species such as , whose discovery in 2019 has led to th...
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| Published in: | Microorganisms (Basel) Vol. 12; no. 8; p. 1512 |
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| Abstract | Plant growth-promoting rhizobacteria (PGPR) are a group of bacteria that associate with the rhizosphere of plants; one of the most abundant bacterial genera in this ecological niche is
, which is constantly expanding due to the emergence of new species such as
, whose discovery in 2019 has led to the characterization of several strains from different environments but taxonomically related. The objective of this work was to phenotypically and molecularly characterize
strain EMP42, isolated from the rhizosphere of
. The strain EMP42 is able to use different substrates and reduce oxidative stress in plants. It is capable of improving growth parameters such as the number of inflorescences and the height of the aerial body of
, as well as the germination and seedling survival of the cacti
and
. The genetic structure of
EMP42 consists of a closed chromosome of 6.14 Mbp, and 61.1% GC content. It has 5572 genes, including those associated with PGPR activities, such as the
ABCDE, SAP,
ABPRU and
ABC genes, among others, and three ncRNA loci, nine regulatory regions, five complete rRNA operons and three CRISPR-Cas loci, showing phylogenomic similarities with the reference strain
B21-026. Therefore, this study contributes to the understanding of genomic diversity within
and, particularly, highlights the potential application of strain EMP42 as a PGPR. |
|---|---|
| AbstractList | Plant growth-promoting rhizobacteria (PGPR) are a group of bacteria that associate with the rhizosphere of plants; one of the most abundant bacterial genera in this ecological niche is Pseudomonas, which is constantly expanding due to the emergence of new species such as Pseudomonas atacamensis, whose discovery in 2019 has led to the characterization of several strains from different environments but taxonomically related. The objective of this work was to phenotypically and molecularly characterize P. atacamensis strain EMP42, isolated from the rhizosphere of Echinocactus platyacanthus. The strain EMP42 is able to use different substrates and reduce oxidative stress in plants. It is capable of improving growth parameters such as the number of inflorescences and the height of the aerial body of Arabidopsis thaliana, as well as the germination and seedling survival of the cacti Echinocactus platyacanthus and Astrophytum capricorne. The genetic structure of P. atacamensis EMP42 consists of a closed chromosome of 6.14 Mbp, and 61.1% GC content. It has 5572 genes, including those associated with PGPR activities, such as the trpABCDE, SAP, phoABPRU and acsABC genes, among others, and three ncRNA loci, nine regulatory regions, five complete rRNA operons and three CRISPR-Cas loci, showing phylogenomic similarities with the reference strain P. atacamensis B21-026. Therefore, this study contributes to the understanding of genomic diversity within P. atacamensis and, particularly, highlights the potential application of strain EMP42 as a PGPR. Plant growth-promoting rhizobacteria (PGPR) are a group of bacteria that associate with the rhizosphere of plants; one of the most abundant bacterial genera in this ecological niche is , which is constantly expanding due to the emergence of new species such as , whose discovery in 2019 has led to the characterization of several strains from different environments but taxonomically related. The objective of this work was to phenotypically and molecularly characterize strain EMP42, isolated from the rhizosphere of . The strain EMP42 is able to use different substrates and reduce oxidative stress in plants. It is capable of improving growth parameters such as the number of inflorescences and the height of the aerial body of , as well as the germination and seedling survival of the cacti and . The genetic structure of EMP42 consists of a closed chromosome of 6.14 Mbp, and 61.1% GC content. It has 5572 genes, including those associated with PGPR activities, such as the ABCDE, SAP, ABPRU and ABC genes, among others, and three ncRNA loci, nine regulatory regions, five complete rRNA operons and three CRISPR-Cas loci, showing phylogenomic similarities with the reference strain B21-026. Therefore, this study contributes to the understanding of genomic diversity within and, particularly, highlights the potential application of strain EMP42 as a PGPR. Plant growth-promoting rhizobacteria (PGPR) are a group of bacteria that associate with the rhizosphere of plants; one of the most abundant bacterial genera in this ecological niche is Pseudomonas , which is constantly expanding due to the emergence of new species such as Pseudomonas atacamensis , whose discovery in 2019 has led to the characterization of several strains from different environments but taxonomically related. The objective of this work was to phenotypically and molecularly characterize P. atacamensis strain EMP42, isolated from the rhizosphere of Echinocactus platyacanthus . The strain EMP42 is able to use different substrates and reduce oxidative stress in plants. It is capable of improving growth parameters such as the number of inflorescences and the height of the aerial body of Arabidopsis thaliana , as well as the germination and seedling survival of the cacti Echinocactus platyacanthus and Astrophytum capricorne . The genetic structure of P. atacamensis EMP42 consists of a closed chromosome of 6.14 Mbp, and 61.1% GC content. It has 5572 genes, including those associated with PGPR activities, such as the trp ABCDE, SAP, pho ABPRU and acs ABC genes, among others, and three ncRNA loci, nine regulatory regions, five complete rRNA operons and three CRISPR-Cas loci, showing phylogenomic similarities with the reference strain P. atacamensis B21-026. Therefore, this study contributes to the understanding of genomic diversity within P. atacamensis and, particularly, highlights the potential application of strain EMP42 as a PGPR. Plant growth-promoting rhizobacteria (PGPR) are a group of bacteria that associate with the rhizosphere of plants; one of the most abundant bacterial genera in this ecological niche is Pseudomonas, which is constantly expanding due to the emergence of new species such as Pseudomonas atacamensis, whose discovery in 2019 has led to the characterization of several strains from different environments but taxonomically related. The objective of this work was to phenotypically and molecularly characterize P. atacamensis strain EMP42, isolated from the rhizosphere of Echinocactus platyacanthus. The strain EMP42 is able to use different substrates and reduce oxidative stress in plants. It is capable of improving growth parameters such as the number of inflorescences and the height of the aerial body of Arabidopsis thaliana, as well as the germination and seedling survival of the cacti Echinocactus platyacanthus and Astrophytum capricorne. The genetic structure of P. atacamensis EMP42 consists of a closed chromosome of 6.14 Mbp, and 61.1% GC content. It has 5572 genes, including those associated with PGPR activities, such as the trpABCDE, SAP, phoABPRU and acsABC genes, among others, and three ncRNA loci, nine regulatory regions, five complete rRNA operons and three CRISPR-Cas loci, showing phylogenomic similarities with the reference strain P. atacamensis B21-026. Therefore, this study contributes to the understanding of genomic diversity within P. atacamensis and, particularly, highlights the potential application of strain EMP42 as a PGPR.Plant growth-promoting rhizobacteria (PGPR) are a group of bacteria that associate with the rhizosphere of plants; one of the most abundant bacterial genera in this ecological niche is Pseudomonas, which is constantly expanding due to the emergence of new species such as Pseudomonas atacamensis, whose discovery in 2019 has led to the characterization of several strains from different environments but taxonomically related. The objective of this work was to phenotypically and molecularly characterize P. atacamensis strain EMP42, isolated from the rhizosphere of Echinocactus platyacanthus. The strain EMP42 is able to use different substrates and reduce oxidative stress in plants. It is capable of improving growth parameters such as the number of inflorescences and the height of the aerial body of Arabidopsis thaliana, as well as the germination and seedling survival of the cacti Echinocactus platyacanthus and Astrophytum capricorne. The genetic structure of P. atacamensis EMP42 consists of a closed chromosome of 6.14 Mbp, and 61.1% GC content. It has 5572 genes, including those associated with PGPR activities, such as the trpABCDE, SAP, phoABPRU and acsABC genes, among others, and three ncRNA loci, nine regulatory regions, five complete rRNA operons and three CRISPR-Cas loci, showing phylogenomic similarities with the reference strain P. atacamensis B21-026. Therefore, this study contributes to the understanding of genomic diversity within P. atacamensis and, particularly, highlights the potential application of strain EMP42 as a PGPR. |
| Audience | Academic |
| Author | de la Torre-Hernández, María Eugenia Aguirre-Garrido, José Félix Martínez-Abarca, Francisco Salinas-Virgen, Leilani Itzel Ramírez-Saad, Hugo César |
| AuthorAffiliation | 4 Departamento de Ciencias Ambientales, Universidad Autónoma Metropolitana-Lerma, Lerma de Villada 52004, Mexico; j.aguirre@correo.ler.uam.mx 1 Doctorado en Ciencias Agropecuarias, Universidad Autónoma Metropolitana-Xochimilco, Mexico City 04960, Mexico; lisv.nani@gmail.com 5 Departamento de Microbiología del Suelo y la Planta, Estación Experimental del Zaidín, Consejo Superior de Investigaciones Científicas, 18008 Granada, Spain; fmabarca@eez.csic.es 2 CONAHCYT-Universidad Autónoma Metropolitana-Xochimilco, Mexico City 04960, Mexico; mdelatorre@correo.xoc.uam.mx 3 Departamento Sistemas Biológicos, Universidad Autónoma Metropolitana-Xochimilco, Mexico City 04960, Mexico |
| AuthorAffiliation_xml | – name: 3 Departamento Sistemas Biológicos, Universidad Autónoma Metropolitana-Xochimilco, Mexico City 04960, Mexico – name: 5 Departamento de Microbiología del Suelo y la Planta, Estación Experimental del Zaidín, Consejo Superior de Investigaciones Científicas, 18008 Granada, Spain; fmabarca@eez.csic.es – name: 1 Doctorado en Ciencias Agropecuarias, Universidad Autónoma Metropolitana-Xochimilco, Mexico City 04960, Mexico; lisv.nani@gmail.com – name: 2 CONAHCYT-Universidad Autónoma Metropolitana-Xochimilco, Mexico City 04960, Mexico; mdelatorre@correo.xoc.uam.mx – name: 4 Departamento de Ciencias Ambientales, Universidad Autónoma Metropolitana-Lerma, Lerma de Villada 52004, Mexico; j.aguirre@correo.ler.uam.mx |
| Author_xml | – sequence: 1 givenname: Leilani Itzel surname: Salinas-Virgen fullname: Salinas-Virgen, Leilani Itzel organization: Doctorado en Ciencias Agropecuarias, Universidad Autónoma Metropolitana-Xochimilco, Mexico City 04960, Mexico – sequence: 2 givenname: María Eugenia orcidid: 0000-0002-9982-2367 surname: de la Torre-Hernández fullname: de la Torre-Hernández, María Eugenia organization: Departamento Sistemas Biológicos, Universidad Autónoma Metropolitana-Xochimilco, Mexico City 04960, Mexico – sequence: 3 givenname: José Félix orcidid: 0000-0002-4017-3753 surname: Aguirre-Garrido fullname: Aguirre-Garrido, José Félix organization: Departamento de Ciencias Ambientales, Universidad Autónoma Metropolitana-Lerma, Lerma de Villada 52004, Mexico – sequence: 4 givenname: Francisco orcidid: 0000-0003-0417-6217 surname: Martínez-Abarca fullname: Martínez-Abarca, Francisco organization: Departamento de Microbiología del Suelo y la Planta, Estación Experimental del Zaidín, Consejo Superior de Investigaciones Científicas, 18008 Granada, Spain – sequence: 5 givenname: Hugo César orcidid: 0000-0002-3220-170X surname: Ramírez-Saad fullname: Ramírez-Saad, Hugo César organization: Departamento Sistemas Biológicos, Universidad Autónoma Metropolitana-Xochimilco, Mexico City 04960, Mexico |
| BackLink | https://www.ncbi.nlm.nih.gov/pubmed/39203355$$D View this record in MEDLINE/PubMed |
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| Keywords | Pseudomonas atacamensis PGPR genomics |
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| Title | Genotypic and Phenotypic Characterization of Pseudomonas atacamensis EMP42 a PGPR Strain Obtained from the Rhizosphere of Echinocactus platyacanthus (Sweet Barrel) |
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