Complete Genome Sequence of a Novel Nonnodulating
            <i>Rhizobium</i>
            Species Isolated from
            <i>Agave americana</i>
            L. Rhizosphere

Rogel-Hernández, Marco Antonio; Guerrero, Gabriela; Rincón-Molina, Clara Ivette; García-Perez, Luis Galdino; Gutiérrez-Miceli, Federico Antonio; Villalobos-Maldonado, Juan José; López-López, Aline; Martı́nez-Romero, Esperanza; Rincón-Rosales, Reiner

doi:10.1128/genomea.01280-17

Cited by 3 publications

(2 citation statements)

References 13 publications

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“…In the endophytic microbiome of Musa spp., we found predicted phage or prophage sequences that were diverged from those of reference phage, suggesting that these phages may be unique to bacterial endophytes or pathogens of banana. Among the abundant and widely shared phages identified in these Musa samples, several resembled Rhizobium phage RR1-A and RR1-B, which are temperate phages first characterized from deep subseafloor sediments (Engelhardt et al, 2013), but also found associated with the rhizosphere of plants, such as Agave americana (Ruíz-Valdiviezo et al, 2017). Phylogenetic comparisons suggested that this phage may be related to phage infecting R. skierniewicense, an endophytic tumorcausing rhizobium (Pulawska et al, 2012).…”

Section: Discussionmentioning

confidence: 93%

Divergent endophytic viromes and phage genome repertoires among banana (Musa) species

Aghdam¹,

Lahowetz²,

Brown³

2023

Front. Microbiol.

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IntroductionViruses generally cause disease, but some viruses may be beneficial as resident regulators of their hosts or host microbiomes. Plant-associated viruses can help plants survive by increasing stress tolerance or regulating endophytic communities. The goal of this study was to characterize endophytic virus communities in banana and plantain (Musa spp.) genotypes, including cultivated and wild species, to assess virome repertoires and detect novel viruses.MethodsDNA viral communities were characterized by shotgun sequencing of an enriched endosphere extract from leaves and roots or corm of 7 distinct Musa genotypes (M. balbisiana, Thai Black, M. textilis, M. sikkimensis, Dwarf Cavendish, Williams Hybrid, and FHIA-25 Hybrid).ResultsResults showed abundant virus-like contigs up to 108,191 bp long with higher relative abundance in leaves than roots. Analyses predicted 733 phage species in 51 families, with little overlap in phage communities among plants. Phage diversity was higher in roots and in diploid wild hosts. Ackermanniviridae and Rhizobium phage were generally the most abundant taxa. A Rhizobium RR1-like phage related to a phage of an endophytic tumor-causing rhizobium was found, bearing a holin gene and a partial Shiga-like toxin gene, raising interest in its potential to regulate endophytic Rhizobiaceae. Klebsiella phages were of interest for possible protection against Fusarium wilt, and other phages were predicted with potential to regulate Erwinia, Pectobacterium, and Ralstonia-associated diseases. Although abundant phage-containing contigs were functionally annotated, revealing 1,038 predicted viral protein domains, gene repertoires showed high divergence from database sequences, suggesting novel phages in these banana cultivars. Plant DNA viruses included 56 species of Badnavirus and 26 additional non-Musa plant viruses with distributions that suggested a mixture of resident and transient plant DNA viruses in these samples.DiscussionTogether, the disparate viral communities in these plants from a shared environment suggest hosts drive the composition of these virus communities. This study forms a first step in understanding the endophytic virome in this globally important food crop, which is currently threatened by fungal, bacterial, and viral diseases.

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Section: Discussionmentioning

confidence: 93%

Divergent endophytic viromes and phage genome repertoires among banana (Musa) species

Aghdam¹,

Lahowetz²,

Brown³

2023

Front. Microbiol.

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“…Además, se ha demostrado que R. etli inhibe la proliferación de patógenos en plantas de papa y maíz (Reiter et al, 2002;Rosenblueth y Martínez-Romero, 2004). Obtuvimos una nueva especie no nodulante de Rhizobium de las raíces de agaves en Chiapas con propiedades de promoción del crecimiento vegetal (Ruiz-Valdiviezo et al, 2017).…”

Section: Rizobios En Plantas No Leguminosas De Méxicounclassified

La diversidad de rizobios nativos de México a la luz de la genómica

et al. 2019

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chiapanecum y S. americanum, además de nuevos linajes de rizobios. El análisis basado en datos genómicos muestra que las especies de Rhizobium cercanas genéticamente comparten significativamente el genoma cromosomal y difieren más en genes contenidos en plásmidos, excepto en algunos plásmidos simbióticos que pueden encontrarse conservados aún en especies no relacionadas que contienen el mismo simbiovar. Los avances en la genómica de rizobios han permitido proponer nuevas especies usando comparaciones genómicas globales y contribuirán al uso más adecuado de estas bacterias como biofertilizantes.

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Rhizobium Presence and Functions in Microbiomes of Non-leguminous Plants

Díez-Méndez

Menéndez

2020

Soil Biology

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The Springer series Soil Biology publishes topical volumes in the fields of microbiology, environmental sciences, plant sciences, biotechnology, biochemistry, microbial ecology, mycology and agricultural sciences.Special emphasis is placed on methodological chapters or volumes. This includes coverage of new molecular techniques relevant to soil biology research or to monitoring and assessing soil quality as well as advanced biotechnological applications. Leading international authorities with a background in academia, industry or government will contribute to the series as authors or editors.

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Complete Genome Sequence of a Novel Nonnodulating Rhizobium Species Isolated from Agave americana L. Rhizosphere

Cited by 3 publications

References 13 publications

Divergent endophytic viromes and phage genome repertoires among banana (Musa) species

Divergent endophytic viromes and phage genome repertoires among banana (Musa) species

La diversidad de rizobios nativos de México a la luz de la genómica

Rhizobium Presence and Functions in Microbiomes of Non-leguminous Plants

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