An unbiased approach to identify genes involved in development in a turtle with temperature-dependent sex determination.

abstract：BACKGROUND:The plastid acquisition by secondary endosymbiosis is a driving force for the algal evolution, and the comparative genomics was required to examine the genomic change of symbiont. Therefore, we established a pipeline of a de novo assembly of middle-sized genomes at a low cost and with high quality using long...

journal_title：BMC genomics

authors： Minei R,Hoshina R,Ogura A

更新日期：2018-09-24 00:00:00

abstract：BACKGROUND:Bacterial genomes possess varying GC content (total guanines (Gs) and cytosines (Cs) per total of the four bases within the genome) but within a given genome, GC content can vary locally along the chromosome, with some regions significantly more or less GC rich than on average. We have examined how the GC co...

journal_title：BMC genomics

authors： Bohlin J,Snipen L,Hardy SP,Kristoffersen AB,Lagesen K,Dønsvik T,Skjerve E,Ussery DW

更新日期：2010-08-06 00:00:00

abstract：BACKGROUND:The host response to influenza A infections is strongly influenced by host genetic factors. Animal models of genetically diverse mouse strains are well suited to identify host genes involved in severe pathology, viral replication and immune responses. Here, we have utilized a dual RNAseq approach that allowe...

journal_title：BMC genomics

authors： Wilk E,Pandey AK,Leist SR,Hatesuer B,Preusse M,Pommerenke C,Wang J,Schughart K

更新日期：2015-09-02 00:00:00

abstract：MOTIVATION:Deciphering gene interaction networks (GINs) from time-course gene expression (TCGx) data is highly valuable to understand gene behaviors (e.g., activation, inhibition, time-lagged causality) at the system level. Existing methods usually use a global or local proximity measure to infer GINs from a single dat...

journal_title：BMC genomics

authors： Liu Q,Song R,Li J

更新日期：2015-01-01 00:00:00

abstract：BACKGROUND:Oral squamous cell carcinoma (OSCC) is one of the most common forms of cancer associated with the presence of precancerous oral leukoplakia. Given the poor prognosis associated with oral leukoplakia, and the difficulties in distinguishing it from cancer lesions, there is an urgent need to elucidate the molec...

journal_title：BMC genomics

authors： Wang Z,Feng X,Liu X,Jiang L,Zeng X,Ji N,Li J,Li L,Chen Q

更新日期：2009-08-19 00:00:00

abstract：BACKGROUND:The mitochondrial genomes of higher plants vary remarkably in size, structure and sequence content, as demonstrated by the accumulation and activity of repetitive DNA sequences. Incompatibility between mitochondrial genome and nuclear genome leads to non-functional male reproductive organs and results in cyt...

journal_title：BMC genomics

authors： Li S,Chen Z,Zhao N,Wang Y,Nie H,Hua J

更新日期：2018-10-26 00:00:00

abstract：BACKGROUND:The milk fat profile of the Danish Holstein (DH) and Danish Jersey (DJ) show clear differences. Identification of the genomic regions, genes and biological pathways underlying the milk fat biosynthesis will improve the understanding of the biology underlying bovine milk fat production and may provide new pos...

journal_title：BMC genomics

authors： Buitenhuis B,Janss LL,Poulsen NA,Larsen LB,Larsen MK,Sørensen P

更新日期：2014-12-15 00:00:00

abstract：BACKGROUND:Plant-bacteria associations have been extensively studied for their potential in increasing crop productivity in a sustainable manner. Serratia marcescens is a species of Enterobacteriaceae found in a wide range of environments, including soil. RESULTS:Here we describe the genome sequencing and assessment o...

journal_title：BMC genomics

authors： Matteoli FP,Passarelli-Araujo H,Reis RJA,da Rocha LO,de Souza EM,Aravind L,Olivares FL,Venancio TM

更新日期：2018-10-16 00:00:00

abstract：BACKGROUND:Efforts towards utilisation of diets without fish meal (FM) or fish oil (FO) in finfish aquaculture have been being made for more than two decades. Metabolic responses to substitution of fishery products have been shown to impact growth performance and immune system of fish as well as their subsequent nutrit...

journal_title：BMC genomics

authors： Geay F,Ferraresso S,Zambonino-Infante JL,Bargelloni L,Quentel C,Vandeputte M,Kaushik S,Cahu CL,Mazurais D

更新日期：2011-10-23 00:00:00

abstract：BACKGROUND:Closely related species of the carp family (Cyprinidae) have evolved distinctive abilities to survive under cold stress, but molecular mechanisms underlying the generation of cold resistance remain largely unknown. In this study, we compared transcriptomic profiles of two carp species to identify key factors...

journal_title：BMC genomics

authors： Ge G,Long Y,Shi L,Ren J,Yan J,Li C,Li Q,Cui Z

更新日期：2020-08-05 00:00:00

abstract：BACKGROUND:Environmental heterogeneity continuously produces a selective pressure that results in genomic variation among organisms; understanding this relationship remains a challenge in evolutionary biology. Here, we evaluated the degree of genome-environmental association of seven stonefly species across a wide geog...

journal_title：BMC genomics

authors： Gamboa M,Watanabe K

更新日期：2019-01-24 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

authors： Laha T,Kewgrai N,Loukas A,Brindley PJ

更新日期：2005-11-04 00:00:00

abstract：BACKGROUND:Following the association of Cronobacter spp. to several publicized fatal outbreaks in neonatal intensive care units of meningitis and necrotising enterocolitis, the World Health Organization (WHO) in 2004 requested the establishment of a molecular typing scheme to enable the international control of the org...

journal_title：BMC genomics

authors： Forsythe SJ,Dickins B,Jolley KA

更新日期：2014-12-16 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:The introduction of genome-wide shRNA and CRISPR libraries has facilitated cell-based screens to identify loss-of-function mutations associated with a phenotype of interest. Approaches to perform analogous gain-of-function screens are less common, although some reports have utilized arrayed viral expression ...

journal_title：BMC genomics

authors： Feddersen CR,Wadsworth LS,Zhu EY,Vaughn HR,Voigt AP,Riordan JD,Dupuy AJ

更新日期：2019-06-17 00:00:00

abstract：BACKGROUND:Species of the crenarchaeon Sulfolobus harbour three replication origins in their single circular chromosome that are synchronously initiated during replication. RESULTS:We demonstrate that global gene expression in two Sulfolobus species is highly biased, such that early replicating genome regions are more...

journal_title：BMC genomics

authors： Andersson AF,Pelve EA,Lindeberg S,Lundgren M,Nilsson P,Bernander R

更新日期：2010-07-28 00:00:00

abstract：BACKGROUND:Genomes store information for building and maintaining organisms. Complete sequencing of many genomes provides the opportunity to study and compare global information properties of those genomes. RESULTS:We have analyzed aspects of the information content of Homo sapiens, Mus musculus, Drosophila melanogast...

journal_title：BMC genomics

authors： Liu Z,Venkatesh SS,Maley CC

更新日期：2008-10-30 00:00:00

abstract：BACKGROUND:Even before having its genome sequence published in 2004, Kluyveromyces lactis had long been considered a model organism for studies in genetics and physiology. Research on Kluyveromyces lactis is quite advanced and this yeast species is one of the few with which it is possible to perform formal genetic anal...

journal_title：BMC genomics

authors： Dias O,Gombert AK,Ferreira EC,Rocha I

更新日期：2012-10-01 00:00:00

abstract：BACKGROUND:Matrix attachment regions (MAR) are the sites on genomic DNA that interact with the nuclear matrix. There is increasing evidence for the involvement of MAR in regulation of gene expression. The unsuitability of experimental detection of MAR for genome-wide analyses has led to the development of computational...

journal_title：BMC genomics

authors： Anthony A,Blaxter M

更新日期：2007-11-15 00:00:00

abstract：BACKGROUND:Human genetic variation produces the wide range of phenotypic differences that make us individual. However, little is known about the distribution of variation in the most conserved functional regions of the human genome. We examined whether different subsets of the conserved human genome have been subjected...

journal_title：BMC genomics

authors： Davidson S,Starkey A,MacKenzie A

更新日期：2009-12-16 00:00:00

abstract：BACKGROUND:Chinese bayberry (Myrica rubra Sieb. & Zucc.) is an important subtropical evergreen fruit tree in southern China. Generally dioecious, the female plants are cultivated for fruit and have been studied extensively, but male plants have received very little attention. Knowledge of males may have a major impact ...

journal_title：BMC genomics

authors： Jia HM,Jiao Y,Wang GY,Li YH,Jia HJ,Wu HX,Chai CY,Dong X,Guo Y,Zhang L,Gao QK,Chen W,Song LJ,van de Weg E,Gao ZS

更新日期：2015-05-19 00:00:00

abstract：BACKGROUND:Reading disability (RD) is a common syndrome with a large genetic component. Chromosome 6 has been identified in several linkage studies as playing a significant role. A more recent study identified a peak of transmission disequilibrium to marker JA04 (G72384) on chromosome 6p22.3, suggesting that a gene is ...

journal_title：BMC genomics

authors： Londin ER,Meng H,Gruen JR

更新日期：2003-06-30 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:Co-expressing genes tend to cluster in eukaryotic genomes. This paper analyzes correlation between the proximity of eukaryotic genes and their transcriptional expression pattern in the zebrafish (Danio rerio) genome using available microarray data and gene annotation. RESULTS:The analyses show that neighbou...

journal_title：BMC genomics

authors： Ng YK,Wu W,Zhang L

更新日期：2009-01-22 00:00:00

abstract：BACKGROUND:High-throughput genotyping platforms play important roles in plant genomic studies. Cotton (Gossypium spp.) is the world's important natural textile fiber and oil crop. Upland cotton accounts for more than 90% of the world's cotton production, however, modern upland cotton cultivars have narrow genetic diver...

journal_title：BMC genomics

authors： Cai C,Zhu G,Zhang T,Guo W

更新日期：2017-08-23 00:00:00

abstract：BACKGROUND:Nicotiana benthamiana is a widely used model plant species for research on plant-pathogen interactions as well as other areas of plant science. It can be easily transformed or agroinfiltrated, therefore it is commonly used in studies requiring protein localization, interaction, or plant-based systems for pro...

journal_title：BMC genomics

authors： Baksa I,Nagy T,Barta E,Havelda Z,Várallyay É,Silhavy D,Burgyán J,Szittya G

更新日期：2015-12-01 00:00:00

abstract：BACKGROUND:Recently, pioneering expression quantitative trait loci (eQTL) studies on single cell RNA sequencing (scRNA-seq) data have revealed new and cell-specific regulatory single nucleotide variants (SNVs). Here, we present an alternative QTL-related approach applicable to transcribed SNV loci from scRNA-seq data: ...

journal_title：BMC genomics

authors： Liu H,Prashant NM,Spurr LF,Bousounis P,Alomran N,Ibeawuchi H,Sein J,Słowiński P,Tsaneva-Atanasova K,Horvath A

更新日期：2021-01-08 00:00:00

abstract：BACKGROUND:Candida albicans is a diploid pathogenic fungus not yet amenable to routine genetic investigations. Understanding aspects of the regulation of its biological functions and the assembly of its protein complexes would lead to further insight into the biology of this common disease-causing microbial agent. RES...

journal_title：BMC genomics

authors： Lavoie H,Sellam A,Askew C,Nantel A,Whiteway M

更新日期：2008-12-02 00:00:00

abstract：BACKGROUND:Transcriptome expression analysis in peanut to date has been limited to a relatively small set of genes and only recently has a significant number of ESTs been released into the public domain. Utilization of these ESTs for oligonucleotide microarrays provides a means to investigate large-scale transcript res...

journal_title：BMC genomics

authors： Payton P,Kottapalli KR,Rowland D,Faircloth W,Guo B,Burow M,Puppala N,Gallo M

更新日期：2009-06-12 00:00:00

abstract：BACKGROUND:Fusion genes are known to be drivers of many common cancers, so they are potential markers for diagnosis, prognosis or therapy response. The advent of paired-end RNA sequencing enhances our ability to discover fusion genes. While there are available methods, routine analyses of large number of samples are st...

journal_title：BMC genomics

authors： Vu TN,Deng W,Trac QT,Calza S,Hwang W,Pawitan Y

更新日期：2018-11-01 00:00:00