Azospirillum lipoferum 4B
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PROVIDER: PRJNA185440 | ENA |
REPOSITORIES: ENA
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Project description:Investigation of whole genome gene expression level changes in a Azospirillum lipoferum 4B associated to artificial roots, Oryza sativa japonica cv. Cigalon roots and Oryza sativa japonica cv. Nipponbare roots, compared to the strain grown in liquid culture.
2014-01-01 | GSE42450 | GEO
Project description:Investigation of whole genome gene expression level changes in a Azospirillum lipoferum 4B associated to artificial roots, Oryza sativa japonica cv. Cigalon roots and Oryza sativa japonica cv. Nipponbare roots, compared to the strain grown in liquid culture. For each of the four condition, two replicates were analysed on an A. lipoferum 4B whole genome expression array designed by Roche Nimblegen, Inc. (Madison, WI, USA), based on the genome sequence (Wisniewski-DyM-CM-) et al. 2011), as follows: two replicates of 5 probes (length, 60 nucleotides) per gene, covering 6,242 genes and using a total of 62,178 probes.
2014-01-01 | E-GEOD-42450 | biostudies-arrayexpress
Project description:Azospirillum lipoferum 4B genome sequencing project.
| PRJEA50367 | ENA
Project description:Cooperation involving Plant Growth-Promoting Rhizobacteria results in improvements of plant growth and health. While pathogenic and symbiotic interactions are known to induce transcriptional changes for genes related to plant defense and development, little is known about the impact of phytostimulating rhizobacteria on plant gene expression. In this context, this study aimed at identifying genes significantly regulated in rice roots upon Azospirillum inoculation, considering possible favored interaction between a strain and its original host cultivar. Genome-wide analyses of root gene expression of Oryza sativa japonica cultivars Cigalon and Nipponbare were performed, by using microarrays, seven days post inoculation with A. lipoferum 4B (isolated from Cigalon roots) or Azospirillum sp. B510 (isolated from Nipponbare) and compared to the respective non-inoculated condition.
2014-12-22 | GSE59137 | GEO
Project description:Cooperation involving Plant Growth-Promoting Rhizobacteria results in improvements of plant growth and health. While pathogenic and symbiotic interactions are known to induce transcriptional changes for genes related to plant defense and development, little is known about the impact of phytostimulating rhizobacteria on plant gene expression. In this context, this study aimed at identifying genes significantly regulated in rice roots upon Azospirillum inoculation, considering possible favored interaction between a strain and its original host cultivar. Genome-wide analyses of root gene expression of Oryza sativa japonica cultivars Cigalon and Nipponbare were performed, by using microarrays, seven days post inoculation with A. lipoferum 4B (isolated from Cigalon roots) or Azospirillum sp. B510 (isolated from Nipponbare) and compared to the respective non-inoculated condition. For each of the four condition, three replicates were analysed on an oligo microarray produced by NimbleGenTM (Madison, WI, USA). The microarray was derived of the one previously described in Yuan et al. 2005 . This microarray is composed of about 385,000 60mer probes selected for their GC content, Tm and number of cycles needed to synthesize the oligo. This chip contains 90,000 probes representing 45,000 genes (two probes per gene) of rice Oryza sativa ssp. japonica, based on the TIGR rice genome annotation version 3.1 genes (Chaparro et al. 2007) and 201 691 oligomers corresponding to previously described copies of LTR retrotranposons available on the retrOryza database (www.retroryza.fr). Probes represent 1,000 bp of the LTR-retrotransposon flanking regions at the 3M-bM-^@M-^Y and 5M-bM-^@M-^Y side. The oligonucleotides have been designed at the 3M-bM-^@M-^Y end of the genes to detect the readings of reverse transcriptase. On the other hand, the LTR-retrotransposons are represented throughout their length at the rate of a probe every 500 bp.
2014-12-22 | E-GEOD-59137 | biostudies-arrayexpress
Project description:Azospirillum lipoferum strain:59b Genome sequencing and assembly
| PRJNA563039 | ENA
Project description:Azospirillum lipoferum Sp59b genome sequencing
| PRJNA710669 | ENA
Project description:Plant growth promoting bacteria (PGPB) might be an alternative to increase nitrogenous use efficiency (NUE) in important crops such wheat. Azospirillum brasilense is one of the most promising PGPB and wheat roots colonized by Azospirillum brasilense is a good model to investigate the molecular basis of plant-PGPB interaction including improvement in plant-NUE promoted by PGPB. An RNA-seq transcriptional analysis of Triticum aestivum roots was carried out in two independent samples (biological replicates) of each treatment (PGPB-colonized or non-inoculated), yielding a total of 4 sequencing libraries, which were designated CWR1 and CWR2 libraries (colonized roots) and N-IWR1 and N-IWR2 (non-inoculated roots).
2014-04-10 | E-MTAB-2301 | biostudies-arrayexpress
Project description:Azospirillum is a plant growth promoting rhizobacteria (PGPR) with ability to produce several phytohormones such as auxins, mainly indole-3-acetic acid (IAA). The positive interaction of Azospirillum with plants has been simplified and explained through the bacterial capacity to produce IAA. Typical changes on root architecture by promoting the number of lateral roots and hair formation, and reducing the primary root length were established in inoculated plants. These changes increase the root surface improving the water and nutrients acquisition, and thus the growth of the whole plant. The mechanisms by which Azospirillum induces such changes fails to be explained only by the bacterial capacity to produce IAA. In this work, we have evaluated the root architecture and gene expression changes occurred in Arabidopsis thaliana inoculated with A. brasilense Az39 and the IAA-deficient mutant (Az39 ipdC-), or treated with exogenous IAA solution to confirm both, the IAA-dependent and IAA-independent Azospirillum´s pathways to promote the root growth. Our results demonstrate the ability of Az39 to modify the primary root development through IAA biosynthesis, while other IAA-independent mechanisms were related to an increase in the lateral roots development and the root hairs number. Jasmonates, ethylene and salicylic acid were increased in the IAA-deficient bacterial treatments, as the ipdC mutant significantly up-regulated transcription of genes enriched of these phytohormones signaling after 7 days. Further, the physical presence of the inactive bacteria (Az39φ) seems to mediate the development of root hairs, a mechanism common to other non-PGPR as E. coli DH5α. Our results suggest that Az39 inoculation induces morphological changes in root architecture through both IAA-dependent and independent mechanism. The IAA biosynthesis by Az39 reduces the primary root length; while the cells contact with the roots increases the root hairs production. Both the synthesis of active IAA and the presence of metabolically active Az39 cells increase the growth and development of lateral roots.
2021-12-24 | GSE192383 | GEO