Inoculation With the Plant-Growth-Promoting Rhizobacterium Pseudomonas fluorescens LBUM677 Impacts the Rhizosphere Microbiome of Three Oilseed Crops

Abstract

The bacterial communities inhabiting the rhizosphere play an important role in plant development and health. Here we studied the effect of inoculation with Pseudomonas fluorescens LBUM677, a plant growth promoting rhizobacterium that promotes seed oil accumulation, on the rhizosphere microbiome of three oilseed crops ( Brassica napus , Buglossoides arvensis , and Glycine max ) over time. Next-Generation high-throughput sequencing targeting the V4 region of 16S rDNA was used to characterize the microbial communities associated with the three different crops, inoculated or not with LBUM677, over a time period of up to 90 days post-inoculation. A total of 1,627,231 amplicon sequence variants were obtained and were taxonomically grouped into 39 different phyla. LBUM677 inoculation and sampling date were found to significantly influence the rhizosphere microbiome of the three oil-producing crops under study. Specifically, inoculation with LBUM677 and sampling date, but not the plant species, were found to significantly alter the alpha- and the beta-diversity of the rhizosphere microbial communities. Differential abundance analyses found that 29 taxonomical bacterial groups were significantly more abundant in the LBUM677 treatments while 30 were significantly more abundant in the control treatments. Predicted functions of the microorganisms were also enriched, including 47 enzymatic pathways in LBUM677 treatments. These non-targeted effects on rhizosphere bacterial communities are discussed in the context of oilseed crops.

Field Site-Specific Effects of an Azospirillum Seed Inoculant on Key Microbial Functional Groups in the Rhizosphere

“…These findings contrast with previous studies showing minor and/or transient ecological impact of Azospirillum inoculants on the resident bacterial community colonizing the rhizosphere ( Ambrosini et al, 2016 ), by molecular fingerprinting in the case of maize ( Herschkovitz et al, 2005 ; Lerner et al, 2006 ; Matsumura et al, 2015 ), wheat ( Naiman et al, 2009 ; Baudoin et al, 2010 ), rice ( Pedraza et al, 2009 ; García de Salamone et al, 2010 , 2012 ; Bao et al, 2013 ), or other crops ( Correa et al, 2007 ; Felici et al, 2008 ), as well as by Illumina MiSeq metabarcoding in the case of maize ( da Costa et al, 2018 ). Modest inoculant impacts on the rhizobacterial community were also found with Bacillus on lettuce (by metagenomics; Kröber et al, 2014 ) and tomato (by pyrosequencing; Qiao et al, 2017 ), Pseudomonas on lettuce (by DGGE and pyrosequencing; Schreiter et al, 2014 ), Pseudomonas or Achromobacter on maize (by Illumina MiSeq; da Costa et al, 2018 ), Stenotrophomonas on maize (by Illumina MiSeq; Kusstatscher et al, 2020 ), multispecies inoculants on tomato (by Illumina MiSeq; Nuzzo et al, 2020 ) and wheat (by pyrosequencing; Dal Cortivo et al, 2020 ), or a multispecies organic amendment on sugarcane (by Illumina MiSeq; Berg et al, 2019 ), whereas a larger impact was observed by Illumina MiSeq with Pseudomonas on maize ( Ke et al, 2019 ) and different oilseed crops ( Jiménez et al, 2020 ); Pseudomonas , Paenibacillus , or Bacillus on lettuce ( Passera et al, 2020 ); an organic amendment enriched in microorganisms on strawberry ( Deng et al, 2019 ); or a multispecies inoculant on onion ( Pellegrini et al, 2021 ).…”

Shifting Perspectives of Translational Research in Bio-Bactericides: Reviewing the Bacillus amyloliquefaciens Paradigm

“…The massive release of BCAs has been hypothesized to have an impact on the plant microbiome. Low-throughput methods at first (plating, DGGE, FISH, Sanger sequencing) and high-throughput methods recently (next-generation sequencing) have analyzed the rhizosphere, and secondarily the phyllosphere microbiota following BCA application [ 133 , 134 ]. Overall, it appears that bacterial BCAs have a minor and transient effect on the microbiome after soil application [ 135 , 136 , 137 , 138 , 139 , 140 ], independently of the soil type and properties [ 141 , 142 , 143 , 144 , 145 ].…”

ОСОБЕННОСТИ СОВМЕСТНОГО КУЛЬТИВИРОВАНИЯ Pseudomonas chlororaphis и Saccharomyces cerevisiae ДЛЯ СОЗДАНИЯ КОМПЛЕКСНОГО БИОПРЕПАРАТА

“…PGPB рода Pseudomonas синтезируют метаболиты, оказывающие ростостимулирующее и антифунгальное действие на растения (5)(6)(7)(8)(9). При использовании этих биопрепаратов показан прирост биологического и хозяйственного урожая ряда культур (7,8).…”

“…PGPB рода Pseudomonas синтезируют метаболиты, оказывающие ростостимулирующее и антифунгальное действие на растения (5)(6)(7)(8)(9). При использовании этих биопрепаратов показан прирост биологического и хозяйственного урожая ряда культур (7,8). Интерес вызывают препараты, созданные на базе совместных культур двух и более PGPB, в частности микробиологический продукт на основе Pseudomonas aureofaciens и Azotobacter vinelandii (10)(11)(12)(13).…”