Abstract:
BACKGROUND:The rapid growth of the world's population demands an increase in food production that no longer can be reached by increasing amounts of nitrogenous fertilizers. 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 A. brasilense is a good model to investigate the molecular basis of plant-PGPB interaction including improvement in plant-NUE promoted by PGPB. RESULTS:We performed a dual RNA-Seq transcriptional profiling of wheat roots colonized by A. brasilense strain FP2. cDNA libraries from biological replicates of colonized and non-inoculated wheat roots were sequenced and mapped to wheat and A. brasilense reference sequences. The unmapped reads were assembled de novo. Overall, we identified 23,215 wheat expressed ESTs and 702 A. brasilense expressed transcripts. Bacterial colonization caused changes in the expression of 776 wheat ESTs belonging to various functional categories, ranging from transport activity to biological regulation as well as defense mechanism, production of phytohormones and phytochemicals. In addition, genes encoding proteins related to bacterial chemotaxi, biofilm formation and nitrogen fixation were highly expressed in the sub-set of A. brasilense expressed genes. CONCLUSIONS:PGPB colonization enhanced the expression of plant genes related to nutrient up-take, nitrogen assimilation, DNA replication and regulation of cell division, which is consistent with a higher proportion of colonized root cells in the S-phase. Our data support the use of PGPB as an alternative to improve nutrient acquisition in important crops such as wheat, enhancing plant productivity and sustainability.
journal_name
BMC Genomicsjournal_title
BMC genomicsauthors
Camilios-Neto D,Bonato P,Wassem R,Tadra-Sfeir MZ,Brusamarello-Santos LC,Valdameri G,Donatti L,Faoro H,Weiss VA,Chubatsu LS,Pedrosa FO,Souza EMdoi
10.1186/1471-2164-15-378subject
Has Abstractpub_date
2014-05-16 00:00:00pages
378issn
1471-2164pii
1471-2164-15-378journal_volume
15pub_type
杂志文章相关文献
BMC GENOMICS文献大全abstract:BACKGROUND:Non-coding small RNAs play critical roles in various cellular processes in a wide spectrum of eukaryotic organisms. Their responses to abiotic stress have become a popular topic of economic and scientific importance in biological research. Several studies in recent years have reported a small number of non-c...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-12-289
更新日期:2011-06-03 00:00:00
abstract:BACKGROUND:Comparative genomics has emerged as a promising means of unravelling the molecular networks underlying complex traits such as drought tolerance. Here we assess the genotype-dependent component of the drought-induced transcriptome response in two poplar genotypes differing in drought tolerance. Drought-induce...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-11-630
更新日期:2010-11-12 00:00:00
abstract:BACKGROUND:Nitrogen (N) is a key macronutrient required for plant growth and development. In this study, watermelon plants were grown under hydroponic conditions at 0.2 mM N, 4.5 mM N, and 9 mM N for 14 days. RESULTS:Dry weight and photosynthetic assimilation at low N (0.2 mM) was reduced by 29 and 74% compared with h...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-018-4856-x
更新日期:2018-06-13 00:00:00
abstract:BACKGROUND:The transformation of a developing epithelium into an adult structure is a complex process, which often involves coordinated changes in cell proliferation, metabolism, adhesion, and shape. To identify genetic mechanisms that control epithelial differentiation, we analyzed the temporal patterns of gene expres...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-13-498
更新日期:2012-09-20 00:00:00
abstract:BACKGROUND:Genome-wide expression profiles are altered during biological aging and can describe molecular regulation of tissue degeneration. Age-regulated mRNA expression trends from cross-sectional studies could describe how aging progresses. We developed a novel statistical methodology to identify age-regulated expre...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-15-132
更新日期:2014-02-14 00:00:00
abstract:BACKGROUND:Soybean (Glycine max) is an important oil provider and ecosystem participant. The protein phosphatase 2C (PP2C) plays important roles in key biological processes. Molecular evolution and functional analysis of the PP2C family in soybean are yet to be reported. RESULTS:The present study identified 134 GmPP2C...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-020-06877-4
更新日期:2020-07-06 00:00:00
abstract:BACKGROUND:Lipopolysaccharide (LPS) from Gram-negative bacteria cause innate immune responses in animals and plants. The molecules involved in LPS signaling in animals are well studied, whereas those in plants are not yet as well documented. Recently, we identified Arabidopsis AtLBR-2, which binds to LPS from Pseudomon...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-017-4372-4
更新日期:2017-12-29 00:00:00
abstract:BACKGROUND:Haplotypes combine the effects of several single nucleotide polymorphisms (SNPs) with high linkage disequilibrium, which benefit the genome-wide association analysis (GWAS). In the haplotype association analysis, both haplotype alleles and blocks are tested. Haplotype alleles can be inferred with the same st...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-020-6552-x
更新日期:2020-02-11 00:00:00
abstract:BACKGROUND:Most of our understanding on the social behavior and genomics of bees and other social insects is centered on the Western honey bee, Apis mellifera. The genus Apis, however, is a highly derived branch comprising less than a dozen species, four of which genomically characterized. In contrast, for the equally ...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-020-06784-8
更新日期:2020-06-03 00:00:00
abstract:BACKGROUND:In many eukaryotes, microRNAs (miRNAs) bind to complementary sites in the 3'-untranslated regions (3'-UTRs) of target messenger RNAs (mRNAs) and regulate their expression at the stage of translation. Recent studies have revealed that many miRNAs are evolutionarily conserved; however, the evolution of their t...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-11-101
更新日期:2010-02-09 00:00:00
abstract:BACKGROUND:LEF1/TCF transcription factors and their activator β-catenin are effectors of the canonical Wnt pathway. Although Wnt/β-catenin signaling has been implicated in neurodegenerative and psychiatric disorders, its possible role in the adult brain remains enigmatic. To address this issue, we sought to identify th...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-13-635
更新日期:2012-11-17 00:00:00
abstract:BACKGROUND:The preferred habitat of a given bacterium can provide a hint of which types of enzymes of potential industrial interest it might produce. These might include enzymes that are stable and active at very high or very low temperatures. Being able to accurately predict this based on a genomic sequence, would thu...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-13-S7-S3
更新日期:2012-01-01 00:00:00
abstract:BACKGROUND:The phytoflagellated protozoan, Euglena gracilis, has been proposed as an attractive feedstock for the accumulation of valuable compounds such as β-1,3-glucan, also known as paramylon, and wax esters. The production of wax esters proceeds under anaerobic conditions, designated as wax ester fermentation. In s...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-016-2540-6
更新日期:2016-03-03 00:00:00
abstract::The Avian Genomics Conference and Gene Ontology Annotation Workshop brought together researchers and students from around the world to present their latest research addressing the delivery of value from the billions of base-pairs of Archosaur sequence that have become available in the last few years. This editorial de...
journal_title:BMC genomics
pub_type:
doi:10.1186/1471-2164-10-S2-I1
更新日期:2009-07-14 00:00:00
abstract:BACKGROUND:Recent studies have suggested that combinations of multiple epigenetic modifications are essential for controlling gene expression. Despite numerous computational approaches have been developed to decipher the combinatorial epigenetic patterns or "epigenetic code", none of them has explicitly addressed the r...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-017-3764-9
更新日期:2017-05-12 00:00:00
abstract:BACKGROUND:Advances in whole genome profiling have revolutionized the cancer research field, but at the same time have raised new bioinformatics challenges. For next generation sequencing (NGS), these include data storage, computational costs, sequence processing and alignment, delineating appropriate statistical measu...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-13-S6-S14
更新日期:2012-01-01 00:00:00
abstract:BACKGROUND:The genomic architecture of adaptive traits remains poorly understood in non-model plants. Various approaches can be used to bridge this gap, including the mapping of quantitative trait loci (QTL) in pedigrees, and genetic association studies in non-structured populations. Here we present results on the geno...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-14-368
更新日期:2013-06-01 00:00:00
abstract:BACKGROUND:Fluctuations in external salinity force eukaryotic cells to respond by changes in the gene expression of proteins acting in protective biochemical processes, thus counteracting the changing osmotic pressure. The high-osmolarity glycerol (HOG) signaling pathway is essential for the efficient up-regulation of ...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-8-280
更新日期:2007-08-16 00:00:00
abstract:BACKGROUND:Colletotrichum graminicola and C. sublineola cause anthracnose leaf and stalk diseases of maize and sorghum, respectively. In spite of their close evolutionary relationship, the two species are completely host-specific. Host specificity is often attributed to pathogen virulence factors, including specialized...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-016-3457-9
更新日期:2017-01-10 00:00:00
abstract:BACKGROUND:Based on sequence similarity, the superfamily of G protein-coupled receptors (GPRs) can be subdivided into several subfamilies, the members of which often share similar ligands. The sequence data provided by the human genome project allows us to identify new GPRs by in silico homology screening, and to predi...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-3-17
更新日期:2002-07-05 00:00:00
abstract::The draft genome sequence of cattle (Bos taurus) has now been analyzed by the Bovine Genome Sequencing and Analysis Consortium and the Bovine HapMap Consortium, which together represent an extensive collaboration involving more than 300 scientists from 25 different countries. ...
journal_title:BMC genomics
pub_type: 社论
doi:10.1186/1471-2164-10-193
更新日期:2009-04-24 00:00:00
abstract:BACKGROUND:The trypanosomatids Leishmania major, Trypanosoma brucei and Trypanosoma cruzi cause some of the most debilitating diseases of humankind: cutaneous leishmaniasis, African sleeping sickness, and Chagas disease. These protozoa possess complex life cycles that involve development in mammalian and insect hosts, ...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-6-127
更新日期:2005-09-15 00:00:00
abstract:BACKGROUND:Skeletal muscle mass can be markedly reduced through a process called atrophy, as a consequence of many diseases or critical physiological and environmental situations. Atrophy is characterised by loss of contractile proteins and reduction of fiber volume. Although in the last decade the molecular aspects un...
journal_title:BMC genomics
pub_type: 杂志文章,meta分析
doi:10.1186/1471-2164-9-630
更新日期:2008-12-23 00:00:00
abstract:BACKGROUND:Cell lines are an indispensable tool in biomedical research and often used as surrogates for tissues. Although there are recognized important cellular and transcriptomic differences between cell lines and tissues, a systematic overview of the differences between the regulatory processes of a cell line and th...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-017-4111-x
更新日期:2017-09-12 00:00:00
abstract:BACKGROUND:The gut of phloem feeding insects is critical for nutrition uptake and xenobiotics degradation. However, partly due to its tiny size, genomic information for the gut of phloem feeding insects is limited. RESULTS:In this study, the gut transcriptomes of two species of invasive whiteflies in the Bemisia tabac...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-15-370
更新日期:2014-05-15 00:00:00
abstract:BACKGROUND:Alternative polyadenylation (APA) has emerged as a pervasive mechanism that contributes to the transcriptome complexity and dynamics of gene regulation. The current tsunami of whole genome poly(A) site data from various conditions generated by 3' end sequencing provides a valuable data source for the study o...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-019-5433-7
更新日期:2019-01-22 00:00:00
abstract:BACKGROUND:Nonspecific hybridization is currently a major concern with microarray technology. One of most effective approaches to estimating nonspecific hybridizations in oligonucleotide microarrays is the utilization of mismatch probes; however, this approach has not been used for longer oligonucleotide probes. RESUL...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-9-491
更新日期:2008-10-17 00:00:00
abstract:BACKGROUND:Ramularia collo-cygni is a newly important, foliar fungal pathogen of barley that causes the disease Ramularia leaf spot. The fungus exhibits a prolonged endophytic growth stage before switching life habit to become an aggressive, necrotrophic pathogen that causes significant losses to green leaf area and he...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-016-2928-3
更新日期:2016-08-09 00:00:00
abstract::An amendment to this paper has been published and can be accessed via the original article. ...
journal_title:BMC genomics
pub_type: 杂志文章,已发布勘误
doi:10.1186/s12864-020-6754-2
更新日期:2020-06-03 00:00:00
abstract:BACKGROUND:Papain-like cysteine proteases (PLCPs), a large group of cysteine proteases structurally related to papain, play important roles in plant development, senescence, and defense responses. Papain, the first cysteine protease whose structure was determined by X-ray crystallography, plays a crucial role in protec...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-017-4394-y
更新日期:2018-01-06 00:00:00