Phylogenetic reconstruction from transpositions.

abstract：BACKGROUND:Candida albicans is an opportunistic pathogenic yeast, which could become pathogenic in various stressful environmental factors including the spaceflight environment. In this study, we aim to explore the phenotypic changes and possible mechanisms of C. albicans after exposure to spaceflight conditions. RESU...

journal_title：BMC genomics

authors： Wang J,Liu Y,Zhao G,Gao J,Liu J,Wu X,Xu C,Li Y

更新日期：2020-01-17 00:00:00

abstract：BACKGROUND:The neonatal bovine mammary fat pad (MFP) surrounding the mammary parenchyma (PAR) is thought to exert proliferative effects on the PAR through secretion of local modulators of growth induced by systemic hormones. We used bioinformatics to characterize transcriptomics differences between PAR and MFP from app...

journal_title：BMC genomics

authors： Piantoni P,Bionaz M,Graugnard DE,Daniels KM,Everts RE,Rodriguez-Zas SL,Lewin HA,Hurley HL,Akers M,Loor JJ

更新日期：2010-05-26 00:00:00

abstract：BACKGROUND:Approximately 11 Mb of finished high quality genomic sequences were sampled from cattle, dog and human to estimate genomic divergences and their regional variation among these lineages. RESULTS:Optimal three-way multi-species global sequence alignments for 84 cattle clones or loci (each >50 kb of genomic se...

journal_title：BMC genomics

authors： Liu GE,Matukumalli LK,Sonstegard TS,Shade LL,Van Tassell CP

更新日期：2006-06-07 00:00:00

abstract：BACKGROUND:Recent studies have demonstrated an unexpected complexity of transcription in eukaryotes. The majority of the genome is transcribed and only a little fraction of these transcripts is annotated as protein coding genes and their splice variants. Indeed, most transcripts are the result of antisense, overlapping...

journal_title：BMC genomics

authors： Calabrese C,Mangiulli M,Manzari C,Paluscio AM,Caratozzolo MF,Marzano F,Kurelac I,D'Erchia AM,D'Elia D,Licciulli F,Liuni S,Picardi E,Attimonelli M,Gasparre G,Porcelli AM,Pesole G,Sbisà E,Tullo A

更新日期：2013-12-05 00:00:00

abstract：BACKGROUND:A thorough verification of the ability of genomic selection (GS) to predict estimated breeding values for pea (Pisum sativum L.) grain yield is pending. Prediction for different environments (inter-environment prediction) has key importance when breeding for target environments featuring high genotype × envi...

journal_title：BMC genomics

authors： Annicchiarico P,Nazzicari N,Pecetti L,Romani M,Russi L

更新日期：2019-07-22 00:00:00

abstract：BACKGROUND:Sugarcane (Saccharum spp.) is predominantly an autopolyploid plant with a variable ploidy level, frequent aneuploidy and a large genome that hampers investigation of its organization. Genetic architecture studies are important for identifying genomic regions associated with traits of interest. However, due t...

journal_title：BMC genomics

authors： Balsalobre TW,da Silva Pereira G,Margarido GR,Gazaffi R,Barreto FZ,Anoni CO,Cardoso-Silva CB,Costa EA,Mancini MC,Hoffmann HP,de Souza AP,Garcia AA,Carneiro MS

更新日期：2017-01-11 00:00:00

abstract：BACKGROUND:Detoxification in the liver involves activation of nuclear receptors, such as the constitutive androstane receptor (CAR), which regulate downstream genes of xenobiotic metabolism. Frequently, the metabolism of endobiotics is also modulated, resulting in potentially harmful effects. We therefore used 1,4-Bis ...

journal_title：BMC genomics

authors： Rezen T,Tamasi V,Lövgren-Sandblom A,Björkhem I,Meyer UA,Rozman D

更新日期：2009-08-19 00:00:00

abstract：BACKGROUND:Aeromonas salmonicida subsp. salmonicida is a ubiquitous psychrophilic waterborne bacterium and a fish pathogen. The numerous mobile elements, especially insertion sequences (IS), in its genome promote rearrangements that impact its phenotype. One of the main virulence factors of this bacterium, its type thr...

journal_title：BMC genomics

authors： Tanaka KH,Vincent AT,Emond-Rheault JG,Adamczuk M,Frenette M,Charette SJ

更新日期：2017-07-12 00:00:00

abstract：BACKGROUND:The transcription factors peroxisome proliferator activated receptor γ (PPARγ) and CCAAT/enhancer binding protein α (C/EBPα) are key transcriptional regulators of adipocyte differentiation and function. We and others have previously shown that binding sites of these two transcription factors show a high degr...

journal_title：BMC genomics

authors： Schmidt SF,Jørgensen M,Chen Y,Nielsen R,Sandelin A,Mandrup S

更新日期：2011-03-16 00:00:00

abstract：BACKGROUND:Sensory hair cells are exquisitely sensitive to mechanical stimuli and as such, are prone to damage and apoptosis during dissections or in vitro manipulations. Thiouracil (TU)-tagging is a noninvasive method to label cell type-specific transcripts in an intact organism, thereby meeting the challenge of how t...

journal_title：BMC genomics

authors： Erickson T,Nicolson T

更新日期：2015-10-23 00:00:00

abstract：BACKGROUND:Alpha tubulin is a fundamental component of the cytoskeleton which is responsible for cell shape and is involved in cell division, ciliary and flagellar motility and intracellular transport. Alpha tubulin gene expression varies according to the morphological changes suffered by Leishmania in its life cycle. ...

journal_title：BMC genomics

authors： Ramírez CA,Requena JM,Puerta CJ

更新日期：2013-07-06 00:00:00

abstract：BACKGROUND:Rumen epithelial tissue plays an important role in nutrient absorption and rumen health. However, whether forage quality and particle size impact the rumen epithelial morphology is unclear. The current study was conducted to elucidate the effects of forage quality and forage particle size on rumen epithelial...

journal_title：BMC genomics

authors： Wang B,Wang D,Wu X,Cai J,Liu M,Huang X,Wu J,Liu J,Guan L

更新日期：2017-05-06 00:00:00

abstract：:In 2009 the International Society for Computational Biology (ISCB) started to roll out regional bioinformatics conferences in Africa, Latin America and Asia. The open and competitive bid for the first meeting in Asia (ISCB-Asia) was awarded to Asia-Pacific Bioinformatics Network (APBioNet) which has been running the I...

journal_title：BMC genomics

authors： Schönbach C,Tan TW,Kelso J,Rost B,Nathan S,Ranganathan S

更新日期：2011-11-30 00:00:00

abstract：BACKGROUND:Effective bioinformatics solutions are needed to tackle challenges posed by industrial-scale genome annotation. We present Bcheck, a wrapper tool which predicts RNase P RNA genes by combining the speed of pattern matching and sensitivity of covariance models. The core of Bcheck is a library of subfamily spec...

journal_title：BMC genomics

authors： Yusuf D,Marz M,Stadler PF,Hofacker IL

更新日期：2010-07-13 00:00:00

abstract：BACKGROUND:Trifoliate orange (Poncirus trifoliata (L.) Raf.) is extremely cold hardy after a full acclimation; however the underlying molecular mechanisms underlying this economically valuable trait remain poorly understood. In this study, global transcriptome profiles of trifoliate orange under cold conditions (4 °C) ...

journal_title：BMC genomics

authors： Wang M,Zhang X,Liu JH

更新日期：2015-07-29 00:00:00

abstract：BACKGROUND:Understanding the processes that drive the evolution of snake venom is a topic of great research interest in molecular and evolutionary toxinology. Recent studies suggest that ontogenetic changes in venom composition are genetically controlled rather than environmentally induced. However, the molecular mecha...

journal_title：BMC genomics

authors： Durban J,Pérez A,Sanz L,Gómez A,Bonilla F,Rodríguez S,Chacón D,Sasa M,Angulo Y,Gutiérrez JM,Calvete JJ

更新日期：2013-04-10 00:00:00

abstract：BACKGROUND:Ocean acidification (OA), a change in ocean chemistry due to the absorption of atmospheric CO2 into surface oceans, challenges biogenic calcification in many marine organisms. Ocean acidification is expected to rapidly progress in polar seas, with regions of the Southern Ocean expected to experience severe O...

journal_title：BMC genomics

authors： Johnson KM,Hofmann GE

更新日期：2017-10-23 00:00:00

abstract：BACKGROUND:Tandem repeats are ubiquitous and abundant in higher eukaryotic genomes and constitute, along with transposable elements, much of DNA underlying centromeres and other heterochromatic domains. In maize, centromeric satellite repeat (CentC) and centromeric retrotransposons (CR), a class of Ty3/gypsy retrotrans...

journal_title：BMC genomics

authors： Sharma A,Wolfgruber TK,Presting GG

更新日期：2013-03-04 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

authors： Greenald D,Jeyakani J,Pelster B,Sealy I,Mathavan S,van Eeden FJ

更新日期：2015-11-11 00:00:00

abstract：BACKGROUND:Wheat yellow (stripe) rust caused by Puccinia striiformis f. sp. tritici (PST) is one of the most devastating diseases of wheat worldwide. To design effective breeding strategies that maximize the potential for durable disease resistance it is important to understand the molecular basis of PST pathogenicity....

journal_title：BMC genomics

authors： Cantu D,Segovia V,MacLean D,Bayles R,Chen X,Kamoun S,Dubcovsky J,Saunders DG,Uauy C

更新日期：2013-04-22 00:00:00

abstract：BACKGROUND:Fusarium verticillioides causes ear rot in maize (Zea mays L.) and accumulation of mycotoxins, that affect human and animal health. Currently, chemical and agronomic measures to control Fusarium ear rot are not very effective and selection of more resistant genotypes is a desirable strategy to reduce contami...

journal_title：BMC genomics

authors： Lanubile A,Ferrarini A,Maschietto V,Delledonne M,Marocco A,Bellin D

更新日期：2014-08-25 00:00:00

abstract：BACKGROUND:A-to-I RNA-editing mediated by ADAR (adenosine deaminase acting on RNA) enzymes that converts adenosine to inosine in RNA sequence can generate mutations and alter gene regulation in metazoans. Previous studies have shown that A-to-I RNA-editing plays vital roles in mouse embryogenesis. However, the RNA-edit...

journal_title：BMC genomics

authors： Qiu S,Li W,Xiong H,Liu D,Bai Y,Wu K,Zhang X,Yang H,Ma K,Hou Y,Li B

更新日期：2016-09-29 00:00:00

abstract：BACKGROUND:Soybean seed weight is not only a yield component, but also a critical trait for various soybean food products such as sprouts, edamame, soy nuts, natto and miso. Linkage analysis and genome-wide association study (GWAS) are two complementary and powerful tools to connect phenotypic differences to the underl...

journal_title：BMC genomics

authors： Yan L,Hofmann N,Li S,Ferreira ME,Song B,Jiang G,Ren S,Quigley C,Fickus E,Cregan P,Song Q

更新日期：2017-07-12 00:00:00

abstract：BACKGROUND:One member of the W family of human endogenous retroviruses (HERV) appears to have been functionally adopted by the human host. Nevertheless, a highly diversified and regulated transcription from a range of HERV-W elements has been observed in human tissues and cells. Aberrant expression of members of this f...

journal_title：BMC genomics

authors： Li F,Nellåker C,Yolken RH,Karlsson H

更新日期：2011-01-12 00:00:00

abstract：BACKGROUND:During eukaryotic genome evolution, tandem gene duplication is the most frequent event giving rise to clustered gene families. However, how expression divergence between tandemly duplicated genes has emerged and maintained remain unclear. In particular, it is unknown if epigenetic regulators have been involv...

journal_title：BMC genomics

authors： Liao BY,Chang A

更新日期：2014-01-01 00:00:00

abstract：BACKGROUND:Taraxacum kok-saghyz R. (Tks) is a promising alternative species to Hevea brasiliensis for production of high quality natural rubber (NR). A comparative transcriptome analysis of plants with differential production of NR will contribute to elucidate which genes are involved in the synthesis, regulation and a...

journal_title：BMC genomics

authors： Panara F,Lopez L,Daddiego L,Fantini E,Facella P,Perrotta G

更新日期：2018-12-04 00:00:00

abstract：BACKGROUND:Reliable indicators for the onset of flowering are not available for most perennial monocarpic species, representing a drawback for crops such as bamboo, agave and banana. The ability to predict and control the transition to the reproductive stage in A. tequilana would represent an advantage for field manage...

journal_title：BMC genomics

authors： Avila de Dios E,Delaye L,Simpson J

更新日期：2019-06-10 00:00:00

abstract：BACKGROUND:Human induced pluripotent stem cells (iPSCs) have a wide range of applications throughout the fields of basic research, disease modeling and drug screening. Epigenetic instable iPSCs with aberrant DNA methylation may divide and differentiate into cancer cells. Unfortunately, little effort has been taken to c...

journal_title：BMC genomics

authors： Shao X,Zhang C,Sun MA,Lu X,Xie H

更新日期：2014-11-18 00:00:00

abstract：BACKGROUND:Nucleosome positioning has an important role in gene regulation. However, dynamic positioning in vivo casts doubt on the reliability of predictions based on DNA sequence characteristics. What role does sequence-dependent positioning play? In this paper, using a curvature profile model, nucleosomes are predic...

journal_title：BMC genomics

authors： Liu H,Duan X,Yu S,Sun X

更新日期：2011-01-27 00:00:00

abstract：BACKGROUND:A disease-causing mutation refers to a heritable genetic change that is associated with a specific phenotype (disease). The detection of a mutation from a patient's sample is critical for the diagnosis, treatment, and prognosis of the disease. There are numerous databases and applications with which to archi...

journal_title：BMC genomics

authors： Jho S,Kim BC,Ghang H,Kim JH,Park D,Kim HM,Jung SY,Yoo KY,Kim HJ,Lee S,Bhak J

更新日期：2009-12-03 00:00:00