Abstract:
BACKGROUND:Despite the importance of wheat as a major staple crop and the negative impact of diseases on its production worldwide, the genetic mechanisms and gene interactions involved in the resistance response in wheat are still poorly understood. The complete sequence of the rice genome has provided an extremely useful parallel road map for genetic and genomics studies in wheat. The recent construction of a defense response interactome in rice has the potential to further enhance the translation of advances in rice to wheat and other grasses. The objective of this study was to determine the degree of conservation in the protein-protein interactions in the rice and wheat defense response interactomes. As entry points we selected proteins that serve as key regulators of the rice defense response: the RAR1/SGT1/HSP90 protein complex, NPR1, XA21, and XB12 (XA21 interacting protein 12). RESULTS:Using available wheat sequence databases and phylogenetic analyses we identified and cloned the wheat orthologs of these four rice proteins, including recently duplicated paralogs, and their known direct interactors and tested 86 binary protein interactions using yeast-two-hybrid (Y2H) assays. All interactions between wheat proteins were further tested using in planta bimolecular fluorescence complementation (BiFC). Eighty three percent of the known rice interactions were confirmed when wheat proteins were tested with rice interactors and 76% were confirmed using wheat protein pairs. All interactions in the RAR1/SGT1/ HSP90, NPR1 and XB12 nodes were confirmed for the identified orthologous wheat proteins, whereas only forty four percent of the interactions were confirmed in the interactome node centered on XA21. We hypothesize that this reduction may be associated with a different sub-functionalization history of the multiple duplications that occurred in this gene family after the divergence of the wheat and rice lineages. CONCLUSIONS:The observed high conservation of interactions between proteins that serve as key regulators of the rice defense response suggests that the existing rice interactome can be used to predict interactions in wheat. Such predictions are less reliable for nodes that have undergone a different history of duplications and sub-functionalization in the two lineages.
journal_name
BMC Genomicsjournal_title
BMC genomicsauthors
Cantu D,Yang B,Ruan R,Li K,Menzo V,Fu D,Chern M,Ronald PC,Dubcovsky Jdoi
10.1186/1471-2164-14-166subject
Has Abstractpub_date
2013-03-12 00:00:00pages
166issn
1471-2164pii
1471-2164-14-166journal_volume
14pub_type
杂志文章相关文献
BMC GENOMICS文献大全abstract:BACKGROUND:Engineered nanomaterials may release nanosized residues, by degradation, throughout their life cycle. These residues may be a threat for living organisms. They may be ingested by humans through food and water. Although the toxicity of pristine CeO2 nanoparticles (NPs) has been documented, there is a lack of ...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-15-700
更新日期:2014-08-21 00:00:00
abstract:BACKGROUND:New and improved antimicrobial countermeasures are urgently needed to counteract increased resistance to existing antimicrobial treatments and to combat currently untreatable or new emerging infectious diseases. We demonstrate that computational comparative genomics, together with experimental screening, can...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-10-501
更新日期:2009-10-29 00:00:00
abstract:BACKGROUND:Alternative splicing (AS) regulation is extensive and shapes the functional complexity of higher organisms. However, the contribution of alternative splicing to fungal biology is not well studied. RESULTS:This study provides sequences of the transcriptomes of the plant wilt pathogen Verticillium dahliae, us...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-017-3507-y
更新日期:2017-02-06 00:00:00
abstract:BACKGROUND:Microsatellites are highly abundant in eukaryotic genomes but their function and evolution are not yet well understood. Their elevated mutation rate makes them ideal markers of genetic difference, but high levels of unexplained heterogeneity in mutation rates among microsatellites at different genomic locati...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-9-49
更新日期:2008-01-28 00:00:00
abstract:BACKGROUND:During embryogenesis the liver is derived from endodermal cells lining the digestive tract. These endodermal progenitor cells contribute to forming the parenchyma of a number of organs including the liver and pancreas. Early in organogenesis the fetal liver is populated by hematopoietic stem cells, the sourc...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-13-33
更新日期:2012-01-19 00:00:00
abstract:BACKGROUND:With the development of several new technologies using synthetic biology, it is possible to engineer genetically intractable organisms including Mycoplasma mycoides subspecies capri (Mmc), by cloning the intact bacterial genome in yeast, using the host yeast's genetic tools to modify the cloned genome, and s...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-15-1180
更新日期:2014-12-24 00:00:00
abstract:BACKGROUND:gammadelta T cells differ from alphabeta T cells with regard to the types of antigen with which their T cell receptors interact; gammadelta T cell antigens are not necessarily peptides nor are they presented on MHC. Cattle are considered a "gammadelta T cell high" species indicating they have an increased pr...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-11-100
更新日期:2010-02-09 00:00:00
abstract:BACKGROUND:Evolution of novel protein-coding genes is the bedrock of adaptive evolution. Recently, we identified six protein-coding genes with similar signal sequence from Schistosoma japonicum egg stage mRNA using signal sequence trap (SST). To find the mechanism underlying the origination of these genes with similar ...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-13-260
更新日期:2012-06-20 00:00:00
abstract:BACKGROUND:Cowpea, Vigna unguiculata (L.) Walp., is one of the most important food and forage legumes in the semi-arid tropics because of its drought tolerance and ability to grow on poor quality soils. Approximately 80% of cowpea production takes place in the dry savannahs of tropical West and Central Africa, mostly b...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-9-103
更新日期:2008-02-27 00:00:00
abstract:BACKGROUND:Pantoea spp. are frequently isolated from a wide range of ecological niches and have various biological roles, as plant epi- or endophytes, biocontrol agents, plant-growth promoters or as pathogens of both plant and animal hosts. This suggests that members of this genus have undergone extensive genotypic div...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-13-625
更新日期:2012-11-15 00:00:00
abstract:BACKGROUND:Dinoflagellates are unicellular marine and freshwater eukaryotes. They possess large nuclear genomes (1.5-245 gigabases) and produce structurally unique and biologically active polyketide secondary metabolites. Although polyketide biosynthesis is well studied in terrestrial and freshwater organisms, only rec...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-015-2195-8
更新日期:2015-11-14 00:00:00
abstract:BACKGROUND:Azadirachtin A is a triterpenoid from neem tree exhibiting excellent activities against over 600 insect species in agriculture. The production of azadirachtin A depends on extraction from neem tissues, which is not an eco-friendly and sustainable process. The low yield and discontinuous supply of azadirachti...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-020-07124-6
更新日期:2020-10-28 00:00:00
abstract:BACKGROUND:Runs of Homozygosity (ROH) are genomic regions where identical haplotypes are inherited from each parent. Since their first detection due to technological advances in the late 1990s, ROHs have been shedding light on human population history and deciphering the genetic basis of monogenic and complex traits an...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-018-4489-0
更新日期:2018-01-30 00:00:00
abstract:BACKGROUND:Previous studies show that galanin neurons in ventrolateral preoptic nucleus (VLPO-Gal) are essential for sleep regulation. Here, we explored the transcriptional regulation of the VLPO-Gal neurons in sleep by comparing their transcriptional responses between sleeping mice and those kept awake, sacrificed at ...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-020-07050-7
更新日期:2020-09-14 00:00:00
abstract:BACKGROUND:Litchi (Litchi chinensis Sonn.) is an economically important evergreen fruit tree widely cultivated in subtropical areas. Low temperature is absolutely required for floral induction of litchi, but its molecular mechanism is not fully understood. Leaves of litchi played a key role during floral induction and ...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-017-3747-x
更新日期:2017-05-10 00:00:00
abstract:BACKGROUND:The out of Africa hypothesis has gained generalized consensus. However, many specific questions remain unsettled. To know whether the two M and N macrohaplogroups that colonized Eurasia were already present in Africa before the exit is puzzling. It has been proposed that the east African clade M1 supports a ...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-8-223
更新日期:2007-07-09 00:00:00
abstract:BACKGROUND:Wood-feeding beetles harbor an ecologically rich and taxonomically diverse assemblage of gut microbes that appear to promote survival in woody tissue, which is devoid of nitrogen and essential nutrients. Nevertheless, the contributions of these apparent symbionts to digestive physiology and nutritional ecolo...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-15-1096
更新日期:2014-12-12 00:00:00
abstract:BACKGROUND:Intergenic splicing resulting in the combination of mRNAs sequences from distinct genes is a newly identified mechanism likely to contribute to protein diversity. Few cases have been described, most of them involving neighboring genes and thus suggesting a cotranscription event presumably due to transcriptio...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-7-71
更新日期:2006-04-04 00:00:00
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:Three-dimensional (3D) multicellular spheroids of mesenchymal stem cells (MSCs) are generally regarded to have beneficial properties over MSCs in monolayer. Recent literatures have documented that MSCs can self-assemble into 3D spheroids with a greater capacity for differentiation into various cell types whe...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-15-10
更新日期:2014-01-05 00:00:00
abstract:BACKGROUND:Nutritional quality of phytoplankton is a major determinant of the trophic transfer efficiency at the plant-herbivore interface in freshwater food webs. In particular, the phytoplankton's content of the essential polyunsaturated omega-3 fatty acid eicosapentaenoic acid (EPA) has been repeatedly shown to limi...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-019-6268-y
更新日期:2019-11-21 00:00:00
abstract:BACKGROUND:Hypoxia Inducible Factor (HIF) regulates a cascade of transcriptional events in response to decreased oxygenation, acting from the cellular to the physiological level. This response is evolutionarily conserved, allowing the use of zebrafish (Danio rerio) as a model for studying the hypoxic response. Activati...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-015-2169-x
更新日期:2015-11-11 00:00:00
abstract:BACKGROUND:Understanding polyphenism, the ability of a single genome to express multiple morphologically and behaviourally distinct phenotypes, is an important goal for evolutionary and developmental biology. Polyphenism has been key to the evolution of the Hymenoptera, and particularly the social Hymenoptera where the...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-12-623
更新日期:2011-12-20 00:00:00
abstract:BACKGROUND:Crustacean moulting is a complex process involving many regulatory pathways. A holistic approach to examine differential gene expression profiles of transcripts relevant to the moulting process, across all moult cycle stages, was used in this study. Custom cDNA microarrays were constructed for Portunus pelag...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-12-147
更新日期:2011-03-12 00:00:00
abstract:BACKGROUND:Over the last decade, emerging research methods, such as comparative genomic analysis and phylogenetic study, have yielded new insights into genotypes and phenotypes of closely related bacterial strains. Several findings have revealed that genomic structural variations (SVs), including gene gain/loss, gene d...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-015-1259-0
更新日期:2015-02-14 00:00:00
abstract:BACKGROUND:The growth and development of the posterior silk gland and the biosynthesis of the silk core protein at the fifth larval instar stage of Bombyx mori are of paramount importance for silk production. RESULTS:Here, aided by next-generation sequencing and microarry assay, we profile 1,229 microRNAs (miRNAs), in...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-15-410
更新日期:2014-05-29 00:00:00
abstract:BACKGROUND:Crohn's disease (CD) is an inflammatory bowel disease caused by genetic and environmental factors. More than 160 susceptibility loci have been identified for IBD, yet a large part of the genetic variance remains unexplained. Recent studies have demonstrated genetic differences between monozygotic twins, who ...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-15-564
更新日期:2014-07-05 00:00:00
abstract:BACKGROUND:The small airway epithelium (SAE), the cell population that covers the human airway surface from the 6th generation of airway branching to the alveoli, is the major site of lung disease caused by smoking. The focus of this study is to provide quantitative assessment of the SAE transcriptome in the resting st...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-13-82
更新日期:2012-02-29 00:00:00
abstract:BACKGROUND:MicroRNAs (miRNAs) are small non-coding RNAs that play important roles by regulating other genes. Rosa rugosa Thunb. is an important ornamental and edible plant, yet there are only a few studies on the miRNAs and their functions in R. rugosa. RESULTS:We sequenced 10 samll RNA profiles from the roots, petals...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-018-5325-2
更新日期:2019-04-18 00:00:00
abstract:BACKGROUND:Macrobrachium rosenbergii, is one of a major freshwater prawn species cultured in Southeast Asia. White tail disease (WTD), caused by Macrobrachium rosenbergii nodavirus (MrNV), is a serious problem in farm cultivation and is responsible for up to 100% mortality in the post larvae stage. Molecular data on ho...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-019-6102-6
更新日期:2019-10-22 00:00:00