Abstract:
BACKGROUND:Fusarium head blight (FHB), caused mainly by Fusarium graminearum (Fg) Schwabe (teleomorph: Gibberellazeae Schwble), brings serious damage to wheat production. Chinese wheat landrace Wangshuibai is one of the most important resistance sources in the world. The knowledge of mechanism underlying its resistance to FHB is still limited. RESULTS:To get an overview of transcriptome characteristics of Wangshuibai during infection by Fg, a high-throughput RNA sequencing based on next generation sequencing (NGS) technology (Illumina) were performed. Totally, 165,499 unigenes were generated and assigned to known protein databases including NCBI non-redundant protein database (nr) (82,721, 50.0%), Gene Ontology (GO) (38,184, 23.1%), Swiss-Prot (50,702, 30.6%), Clusters of orthologous groups (COG) (51,566, 31.2%) and the Kyoto Encyclopedia of Genes and Genomes (KEGG) (30,657, 18.5%), as determined by Blastx search. With another NGS based platform, a digital gene expression (DGE) system, gene expression in Wangshuibai and its FHB susceptible mutant NAUH117 was profiled and compared at two infection stages by inoculation of Fg at 24 and 48 hour, with the aim of identifying genes involved in FHB resistance. CONCLUSION:Pathogen-related proteins such as PR5, PR14 and ABC transporter and JA signaling pathway were crucial for FHB resistance, especially that mediated by Fhb1. ET pathway and ROS/NO pathway were not activated in Wangshuibai and may be not pivotal in defense to FHB. Consistent with the fact that in NAUH117 there presented a chromosome fragment deletion, which led to its increased FHB susceptibility, in Wangshuibai, twenty out of eighty-nine genes showed changed expression patterns upon the infection of Fg. The up-regulation of eight of them was confirmed by qRT-PCR, revealing they may be candidate genes for Fhb1 and need further functional analysis to confirm their roles in FHB resistance.
journal_name
BMC Genomicsjournal_title
BMC genomicsauthors
Xiao J,Jin X,Jia X,Wang H,Cao A,Zhao W,Pei H,Xue Z,He L,Chen Q,Wang Xdoi
10.1186/1471-2164-14-197subject
Has Abstractpub_date
2013-03-21 00:00:00pages
197issn
1471-2164pii
1471-2164-14-197journal_volume
14pub_type
杂志文章相关文献
BMC GENOMICS文献大全abstract:BACKGROUND:Theileria parva is an intracellular parasite that causes a lymphoproliferative disease in cattle. It does so by inducing cancer-like phenotypes in the host cells it infects, although the molecular and regulatory mechanisms involved remain poorly understood. RNAseq data, and the resulting updated genome annot...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-016-2444-5
更新日期:2016-02-20 00:00:00
abstract:BACKGROUND:Aspartic proteases are known to play an important role in the biology of nematode parasitism. This role is best characterised in blood-feeding nematodes, where they digest haemoglobin, but they are also likely to play important roles in the biology of nematode parasites that do not feed on blood. In the pres...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-10-611
更新日期:2009-12-16 00:00:00
abstract:BACKGROUND:Major changes in gene expression occur in the fetal brain to modulate the function of this organ postnatally. Thus, factors can alter the genomics of the fetal brain, predisposing to neurological disorders later in life. We hypothesized that the physiological dynamics of the immune system transcriptome of th...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-15-1001
更新日期:2014-11-19 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:Iron homeostasis is a key metabolism for most organisms. In many bacterial species, coordinate regulation of iron homeostasis depends on the protein product of a Fur gene. Fur also plays roles in virulence, acid tolerance, redox-stress responses, flagella chemotaxis and metabolic pathways. RESULTS:We conduc...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-9-S1-S11
更新日期:2008-01-01 00:00:00
abstract:BACKGROUND:Although the study of gene regulation via the action of specific microRNAs (miRNAs) has experienced a boom in recent years, the analysis of genome-wide interaction networks among miRNAs and respective targeted mRNAs has lagged behind. MicroRNAs simultaneously target many transcripts and fine-tune the express...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-14-725
更新日期:2013-10-22 00:00:00
abstract:BACKGROUND:It is becoming apparent that perhaps as much as half of the genome of the human blood fluke Schistosoma mansoni is constituted of mobile genetic element-related sequences. Non-long terminal repeat (LTR) retrotransposons, related to the LINE elements of mammals, comprise much of this repetitive component of t...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-6-154
更新日期:2005-11-04 00:00:00
abstract:BACKGROUND:Aging is affected by genetic and environmental factors, and cigarette smoking is strongly associated with accumulation of senescent cells. In this study, we wanted to identify genes that may potentially be beneficial for cell survival in response to cigarette smoke and thereby may contribute to development o...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-018-5409-z
更新日期:2019-01-09 00:00:00
abstract:BACKGROUND:Due to the limited availability and high cost of fish oil in the face of increasing aquaculture production, there is a need to reduce usage of fish oil in aquafeeds without compromising farm fish health. Therefore, the present study was conducted to determine if different levels of vegetable and fish oils ca...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-017-4099-2
更新日期:2017-09-08 00:00:00
abstract:BACKGROUND:Adenosine to inosine (A-to-I) RNA-editing is an essential post-transcriptional mechanism that occurs in numerous sites in the human transcriptome, mainly within Alu repeats. It has been shown to have consistent levels of editing across individuals in a few targets in the human brain and altered in several hu...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-11-608
更新日期:2010-10-28 00:00:00
abstract:BACKGROUND:Sclerotinia Stem Rot (SSR), caused by the fungal pathogen Sclerotinia sclerotiorum, is ubiquitous in cooler climates where soybean crops are grown. Breeding for resistance to SSR remains challenging in crops like soybean, where no single gene provides strong resistance, but instead, multiple genes work toget...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-017-4160-1
更新日期:2017-11-07 00:00:00
abstract:BACKGROUND:Panax notoginseng (Burk) F.H. Chen is important medicinal plant of the Araliacease family. Triterpene saponins are the bioactive constituents in P. notoginseng. However, available genomic information regarding this plant is limited. Moreover, details of triterpene saponin biosynthesis in the Panax species ar...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-12-S5-S5
更新日期:2011-12-23 00:00:00
abstract:BACKGROUND:Siraitia grosvenorii (Luohanguo) is an herbaceous perennial plant native to southern China and most prevalent in Guilin city. Its fruit contains a sweet, fleshy, edible pulp that is widely used in traditional Chinese medicine. The major bioactive constituents in the fruit extract are the cucurbitane-type tri...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-12-343
更新日期:2011-07-05 00:00:00
abstract:BACKGROUND:Exiguobacterium antarcticum strain B7 is a Gram-positive psychrotrophic bacterial species isolated in Antarctica. Although this bacteria has been poorly studied, its genome has already been sequenced. Therefore, it is an appropriate model for the study of thermal adaptation. In the present study, we analyzed...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-15-986
更新日期:2014-11-18 00:00:00
abstract:BACKGROUND:Auxin plays a critical role in inducing adventitious rooting in many plants. Indole-3-butyric acid (IBA) is the most widely employed auxin for adventitious rooting. However, the molecular mechanisms by which auxin regulate the process of adventitious rooting are less well known. RESULTS:The RNA-Seq data ana...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-016-2372-4
更新日期:2016-01-12 00:00:00
abstract:BACKGROUND:Moraxella catarrhalis is an important pathogen that often causes otitis media in children, a disease that is not currently vaccine preventable. Asymptomatic colonisation of the human upper respiratory tract is common and lack of clearance by the immune system is likely due to the emergence of seroresistant g...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-015-2104-1
更新日期:2015-10-24 00:00:00
abstract:BACKGROUND:The central role of the somatotrophic axis in animal post-natal growth, development and fertility is well established. Therefore, the identification of genetic variants affecting quantitative traits within this axis is an attractive goal. However, large sample numbers are a pre-requisite for the identificati...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-13-16
更新日期:2012-01-11 00:00:00
abstract:BACKGROUND:Essential genes are indispensable for the survival of living entities. They are the cornerstones of synthetic biology, and are potential candidate targets for antimicrobial and vaccine design. DESCRIPTION:Here we describe the Cluster of Essential Genes (CEG) database, which contains clusters of orthologous ...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-14-769
更新日期:2013-11-09 00:00:00
abstract:BACKGROUND:Studies of gene regulation often utilize genome-wide predictions of transcription factor (TF) binding sites. Most existing prediction methods are based on sequence information alone, ignoring biological contexts such as developmental stages and tissue types. Experimental methods to study in vivo binding, inc...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-14-796
更新日期:2013-11-15 00:00:00
abstract:BACKGROUND:The Yesso scallop, Patinopecten (Mizuhopecten) yessoensis, is a commercially important bivalve in the coastal countries of Northeast Asia. It has complex modes of sex differentiation, but knowledge of the mechanisms underlying this sex determination and differentiation is limited. RESULTS:In this study, the...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-019-6021-6
更新日期:2019-08-23 00:00:00
abstract:BACKGROUND:Many bacterial chromosomes display nucleotide asymmetry, or skew, between the leading and lagging strands of replication. Mutational differences between these strands result in an overall pattern of skew that is centered about the origin of replication. Such a pattern could also arise from selection coupled ...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-8-369
更新日期:2007-10-12 00:00:00
abstract:BACKGROUND:The nucleoli, including their proteomes, of higher eukaryotes have been extensively studied, while few studies about the nucleoli of the lower eukaryotes - protists were reported. Giardia lamblia, a protist with the controversy of whether it is an extreme primitive eukaryote or just a highly evolved parasite...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-020-6679-9
更新日期:2020-03-30 00:00:00
abstract:BACKGROUND:ATP binding cassette (ABC) systems are responsible for the import and export of a wide variety of molecules across cell membranes and comprise one of largest protein superfamilies found in prokarya, eukarya and archea. ABC systems play important roles in bacterial lifestyle, virulence and survival. In this s...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-8-83
更新日期:2007-03-28 00:00:00
abstract:BACKGROUND:Rainbow trout is a significant fish farming species under temperate climates. Female reproduction traits play an important role in the economy of breeding companies with the sale of fertilized eggs. The objectives of this study are threefold: to estimate the genetic parameters of female reproduction traits, ...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-020-06955-7
更新日期:2020-08-14 00:00:00
abstract:BACKGROUND:The transition from exponential to stationary phase in Streptomyces coelicolor is accompanied by a major metabolic switch and results in a strong activation of secondary metabolism. Here we have explored the underlying reorganization of the metabolome by combining computational predictions based on constrain...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-11-202
更新日期:2010-03-26 00:00:00
abstract::DpbCasX, also called Cas12e, is an RNA-guided DNA endonuclease isolated from Deltaproteobacteria. In this paper I characterized the CasX-compatible genome editing sites in the reference genomes of yeast (Saccharomyces cerevisiae), flatworms (Caenorhabditis elegans), flies (Drosophila melanogaster), zebrafish (Danio re...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-019-5924-6
更新日期:2019-06-27 00:00:00
abstract:BACKGROUND:BCG is the most widely used vaccine of all time and remains the only licensed vaccine for use against tuberculosis in humans. BCG also protects other species such as cattle against tuberculosis, but due to its incompatibility with current tuberculin testing regimens remains unlicensed. BCG's efficacy relates...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-019-5791-1
更新日期:2019-05-28 00:00:00
abstract:BACKGROUND:It has been shown that nearly a quarter of the initial predicted gene models in the Plasmodium falciparum genome contain errors. Although there have been efforts to obtain complete cDNA sequences to correct the errors, the coverage of cDNA sequences on the predicted genes is still incomplete, and many gene m...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-12-587
更新日期:2011-11-30 00:00:00
abstract:BACKGROUND:Duchenne muscular dystrophy (DMD), caused by mutations in the dystrophin gene, is lethal. In contrast, dystrophin-deficient mdx mice recover due to effective regeneration of affected muscle tissue. To characterize the molecular processes associated with regeneration, we compared gene expression levels in hin...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-6-98
更新日期:2005-07-13 00:00:00
abstract:BACKGROUND:Ophiocordyceps sinensis is an important traditional Chinese medicine for its comprehensive active ingredients, such as cordycepin, cordycepic acid, and Cordyceps polysaccharide. O. sinensis zjut, a special strain isolated from O. sinensis, has similar pharmacological functions to wild O. sinensis. Currently,...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-020-07298-z
更新日期:2020-12-11 00:00:00