Partial depletion of yolk during zebrafish embryogenesis changes the dynamics of methionine cycle and metabolic genes.

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

authors： Calura E,Cagnin S,Raffaello A,Laveder P,Lanfranchi G,Romualdi C

更新日期：2008-12-23 00:00:00

abstract：BACKGROUND:Roche 454 pyrosequencing has become a method of choice for generating transcriptome data from non-model organisms. Once the tens to hundreds of thousands of short (250-450 base) reads have been produced, it is important to correctly assemble these to estimate the sequence of all the transcripts. Most transcr...

journal_title：BMC genomics

authors： Kumar S,Blaxter ML

更新日期：2010-10-16 00:00:00

abstract：BACKGROUND:The freshwater snail Lymnaea stagnalis (L. stagnalis) has served as a successful model for studies in the field of Neuroscience. However, a serious drawback in the molecular analysis of the nervous system of L. stagnalis has been the lack of large-scale genomic or neuronal transcriptome information, thereby ...

journal_title：BMC genomics

authors： Feng ZP,Zhang Z,van Kesteren RE,Straub VA,van Nierop P,Jin K,Nejatbakhsh N,Goldberg JI,Spencer GE,Yeoman MS,Wildering W,Coorssen JR,Croll RP,Buck LT,Syed NI,Smit AB

更新日期：2009-09-23 00:00:00

abstract：BACKGROUND:Reads assignment to taxonomic units is a key step in microbiome analysis pipelines. To date, accurate taxonomy annotation of 16S reads, particularly at species rank, is still challenging due to the short size of read sequences and differently curated classification databases. The close phylogenetic relations...

journal_title：BMC genomics

authors： Meola M,Rifa E,Shani N,Delbès C,Berthoud H,Chassard C

更新日期：2019-07-08 00:00:00

abstract：BACKGROUND:Homologous recombination is the key process that generates genetic diversity and drives evolution. SPO11 protein triggers recombination by introducing DNA double stranded breaks at discreet areas of the genome called recombination hotspots. The hotspot locations are largely determined by the DNA binding spec...

journal_title：BMC genomics

authors： Smagulova F,Brick K,Pu Y,Sengupta U,Camerini-Otero RD,Petukhova GV

更新日期：2013-07-22 00:00:00

abstract：BACKGROUND:Brown and white adipose tissues (BAT and WAT) play critical roles in controlling energy homeostasis and in the development of obesity and diabetes. The mouse Fat-Specific protein 27 (FSP27), a member of the cell death-inducing DFF45-like effector (CIDE) family, is expressed in both BAT and WAT and is associa...

journal_title：BMC genomics

authors： Li D,Zhang Y,Xu L,Zhou L,Wang Y,Xue B,Wen Z,Li P,Sang J

更新日期：2010-07-22 00:00:00

abstract：BACKGROUND:Brown planthopper (BPH), Nilaparvata lugens Stål, is one of the most destructive insect pests of rice. The molecular responses of plants to sucking insects resemble responses to pathogen infection. However, the molecular mechanism of BPH-resistance in rice remains unclear. Transcription factors (TF) are up-s...

journal_title：BMC genomics

authors： Wang Y,Guo H,Li H,Zhang H,Miao X

更新日期：2012-12-10 00:00:00

abstract：BACKGROUND:Sheath blight (SB), caused by Rhizoctonia solani, is a common rice disease worldwide. Currently, rice cultivars with robust resistance to R. solani are still lacking. To provide theoretic basis for molecular breeding of R. solani-resistant rice cultivars, the changes of transcriptome profiles in response to ...

journal_title：BMC genomics

authors： Shi W,Zhao SL,Liu K,Sun YB,Ni ZB,Zhang GY,Tang HS,Zhu JW,Wan BJ,Sun HQ,Dai JY,Sun MF,Yan GH,Wang AM,Zhu GY

更新日期：2020-03-19 00:00:00

abstract：BACKGROUND:Hemolymph plays key roles in honey bee molecule transport, immune defense, and in monitoring the physiological condition. There is a lack of knowledge regarding how the proteome achieves these biological missions for both the western and eastern honey bees (Apis mellifera and Apis cerana). A time-resolved pr...

journal_title：BMC genomics

authors： Feng M,Ramadan H,Han B,Fang Y,Li J

更新日期：2014-07-05 00:00:00

abstract：BACKGROUND:The importance of poultry as a global source of protein underpins the chicken genome and associated SNP data as key tools in selecting and breeding healthy robust birds with improved disease resistance. SNPs affecting host peptides involved in the innate defences tend to be rare, but three non-synonymous SNP...

journal_title：BMC genomics

authors： Cadwell K,Niranji SS,Armstrong VL,Mowbray CA,Bailey R,Watson KA,Hall J

更新日期：2017-08-18 00:00:00

abstract：BACKGROUND:The transcriptome and its regulation bridge the genome and the phenome. Recent RNA-seq studies unveiled complex transcriptomes with previously unknown transcripts and functions. To investigate the characteristics of neural transcriptomes and possible functions of previously unknown transcripts, we analyzed a...

journal_title：BMC genomics

authors： Sun Y,Wang Y,Hu Y,Chen G,Ma H

更新日期：2011-10-10 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

authors： O'Keefe DD,Thomas SR,Bolin K,Griggs E,Edgar BA,Buttitta LA

更新日期：2012-09-20 00:00:00

abstract：BACKGROUND:Availability of molecular markers has proven to be an efficient tool in facilitating progress in plant breeding, which is particularly important in the case of less researched crops such as cotton. Considering the obvious advantages of single nucleotide polymorphisms (SNPs) and insertion-deletion polymorphis...

journal_title：BMC genomics

authors： Li X,Gao W,Guo H,Zhang X,Fang DD,Lin Z

更新日期：2014-12-01 00:00:00

abstract：BACKGROUND:An estimated 15,000 children and adolescents under the age of 19 years are diagnosed with leukemia, lymphoma and other tumors in the USA every year. All children and adolescent acute leukemia patients will undergo chemotherapy as part of their treatment regimen. Fortunately, survival rates for most pediatric...

journal_title：BMC genomics

authors： Rajagopala SV,Yooseph S,Harkins DM,Moncera KJ,Zabokrtsky KB,Torralba MG,Tovchigrechko A,Highlander SK,Pieper R,Sender L,Nelson KE

更新日期：2016-08-15 00:00:00

abstract：BACKGROUND:Several methods have recently been developed to identify regions of the genome that have been exposed to strong selection. However, recent theoretical and empirical work suggests that polygenic models are required to identify the genomic regions that are more moderately responding to ongoing selection on com...

journal_title：BMC genomics

authors： Decker JE,Vasco DA,McKay SD,McClure MC,Rolf MM,Kim J,Northcutt SL,Bauck S,Woodward BW,Schnabel RD,Taylor JF

更新日期：2012-11-09 00:00:00

abstract：BACKGROUND:The completed sequence of the Anopheles gambiae genome has enabled genome-wide analyses of gene expression and regulation in this principal vector of human malaria. These investigations have created a demand for efficient methods of cataloguing and analyzing the large quantities of data that have been produc...

journal_title：BMC genomics

authors： Dissanayake SN,Marinotti O,Ribeiro JM,James AA

更新日期：2006-05-17 00:00:00

abstract：BACKGROUND:Paired-tag sequencing approaches are commonly used for the analysis of genome structure. However, mammalian genomes have a complex organization with a variety of repetitive elements that complicate comprehensive genome-wide analyses. RESULTS:Here, we systematically assessed the utility of paired-end and mat...

journal_title：BMC genomics

authors： van Heesch S,Kloosterman WP,Lansu N,Ruzius FP,Levandowsky E,Lee CC,Zhou S,Goldstein S,Schwartz DC,Harkins TT,Guryev V,Cuppen E

更新日期：2013-04-16 00:00:00

abstract：BACKGROUND:Acinetobacter baumannii has recently emerged as a significant global pathogen, with a surprisingly rapid acquisition of antibiotic resistance and spread within hospitals and health care institutions. This study examines the genomic content of three A. baumannii strains isolated from distinct body sites. Isol...

journal_title：BMC genomics

authors： Sahl JW,Johnson JK,Harris AD,Phillippy AM,Hsiao WW,Thom KA,Rasko DA

更新日期：2011-06-04 00:00:00

abstract：BACKGROUND:Cryptic unstable transcripts (CUTs) are a largely unexplored class of nuclear exosome degraded, non-coding RNAs in budding yeast. It is highly debated whether CUT transcription has a functional role in the cell or whether CUTs represent noise in the yeast transcriptome. We sought to ascertain the extent of c...

journal_title：BMC genomics

authors： Vera JM,Dowell RD

更新日期：2016-04-26 00:00:00

abstract：BACKGROUND:Macrosatellites are some of the largest variable number tandem repeats in the human genome, but what role these unusual sequences perform is unknown. Their importance to human health is clearly demonstrated by the 4q35 macrosatellite D4Z4 that is associated with the onset of the muscle degenerative disease f...

journal_title：BMC genomics

authors： Tremblay DC,Alexander G Jr,Moseley S,Chadwick BP

更新日期：2010-11-15 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

authors： Roberson EDO

更新日期：2019-06-27 00:00:00

abstract：BACKGROUND:Pekin duck products have become popular in Asia over recent decades and account for an increasing market share. However, the genetic mechanisms affecting carcass growth in Pekin ducks remain unknown. This study aimed to identify quantitative trait loci affecting body size and carcass yields in Pekin ducks. ...

journal_title：BMC genomics

authors： Deng MT,Zhu F,Yang YZ,Yang FX,Hao JP,Chen SR,Hou ZC

更新日期：2019-01-03 00:00:00

abstract：BACKGROUND:Miniature inverted repeat transposable element (MITE) is one type of transposable element (TE), which is largely found in eukaryotic genomes and involved in a wide variety of biological events. However, only few MITEs were proved to be currently active and their physiological function remains largely unknown...

journal_title：BMC genomics

authors： Dong HT,Zhang L,Zheng KL,Yao HG,Chen J,Yu FC,Yu XX,Mao BZ,Zhao D,Yao J,Li DB

更新日期：2012-04-13 00:00:00

abstract：BACKGROUND:Starches are the main storage polysaccharides in plants and are distributed widely throughout plants including seeds, roots, tubers, leaves, stems and so on. Currently, microscopic observation is one of the most important ways to investigate and analyze the structure of starches. The position, shape, and siz...

journal_title：BMC genomics

authors： Guo S,Tang J,Deng Y,Xia Q

更新日期：2010-11-02 00:00:00

abstract：BACKGROUND:Every year, substantial crop loss occurs globally, as a result of bacterial, fungal, parasite and viral infections in rice. Here, we present an in-depth investigation of the transcriptomic response to infection with the destructive bacterial pathogen Xanthomonas oryzae pv. oryzae(Xoo) in both resistant and s...

journal_title：BMC genomics

authors： Narsai R,Wang C,Chen J,Wu J,Shou H,Whelan J

更新日期：2013-02-12 00:00:00

abstract：BACKGROUND:Many plant genes have been identified through whole genome and deep transcriptome sequencing and other methods; yet our knowledge on the function of many of these genes remains limited. The integration and analysis of large gene-expression datasets gives researchers the ability to formalize hypotheses concer...

journal_title：BMC genomics

authors： Wilson TJ,Lai L,Ban Y,Ge SX

更新日期：2012-06-13 00:00:00

abstract：BACKGROUND:Rhizobial symbionts belong to the classes Alphaproteobacteria and Betaproteobacteria (called "alpha" and "beta"-rhizobia). Most knowledge on the genetic basis of symbiosis is based on model strains belonging to alpha-rhizobia. Mimosa pudica is a legume that offers an excellent opportunity to study the adapta...

journal_title：BMC genomics

authors： Klonowska A,Melkonian R,Miché L,Tisseyre P,Moulin L

更新日期：2018-01-30 00:00:00

abstract：BACKGROUND:Petal nectar spurs, which facilitate pollination through animal attraction and pollen placement, represent a key innovation promoting diversification in the genus Aquilegia (Ranunculaceae). Identifying the genetic components that contribute to the development of these three-dimensional structures will inform...

journal_title：BMC genomics

authors： Ballerini ES,Kramer EM,Hodges SA

更新日期：2019-08-22 00:00:00

abstract：BACKGROUND:High-throughput omics technologies such as microarrays and next-generation sequencing (NGS) have become indispensable tools in biological research. Computational analysis and biological interpretation of omics data can pose significant challenges due to a number of factors, in particular the systems integrat...

journal_title：BMC genomics

authors： Hermida L,Poussin C,Stadler MB,Gubian S,Sewer A,Gaidatzis D,Hotz HR,Martin F,Belcastro V,Cano S,Peitsch MC,Hoeng J

更新日期：2013-07-29 00:00:00

abstract：BACKGROUND:Clostridium sticklandii belongs to a cluster of non-pathogenic proteolytic clostridia which utilize amino acids as carbon and energy sources. Isolated by T.C. Stadtman in 1954, it has been generally regarded as a "gold mine" for novel biochemical reactions and is used as a model organism for studying metabol...

journal_title：BMC genomics

authors： Fonknechten N,Chaussonnerie S,Tricot S,Lajus A,Andreesen JR,Perchat N,Pelletier E,Gouyvenoux M,Barbe V,Salanoubat M,Le Paslier D,Weissenbach J,Cohen GN,Kreimeyer A

更新日期：2010-10-11 00:00:00