Transcriptome analysis reveals differentially expressed genes associated with germ cell and gonad development in the Southern bluefin tuna (Thunnus maccoyii).

abstract：:We describe an emerging initiative - the 'Functional Annotation of All Salmonid Genomes' (FAASG), which will leverage the extensive trait diversity that has evolved since a whole genome duplication event in the salmonid ancestor, to develop an integrative understanding of the functional genomic basis of phenotypic var...

journal_title：BMC genomics

authors： Macqueen DJ,Primmer CR,Houston RD,Nowak BF,Bernatchez L,Bergseth S,Davidson WS,Gallardo-Escárate C,Goldammer T,Guiguen Y,Iturra P,Kijas JW,Koop BF,Lien S,Maass A,Martin SAM,McGinnity P,Montecino M,Naish KA,Nichols K

更新日期：2017-06-27 00:00:00

abstract：BACKGROUND:Sugarcane is an economically important crop contributing about 80% and 40% to the world sugar and ethanol production, respectively. The complicated genetics consequential to its complex polyploid genome, however, have impeded efforts to improve sugar yield and related important agronomic traits. Modern sugar...

journal_title：BMC genomics

authors： Zhang J,Arro J,Chen Y,Ming R

更新日期：2013-05-10 00:00:00

abstract：BACKGROUND:High throughput experiments resulted in many genomic datasets and hundreds of candidate disease genes. To discover the real disease genes from a set of candidate genes, computational methods have been proposed and worked on various types of genomic data sources. As a single source of genomic data is prone of...

journal_title：BMC genomics

authors： Li Y,Li J

更新日期：2012-01-01 00:00:00

abstract：BACKGROUND:The accurate determination of the genomic coordinates for a given gene - its gene model - is of vital importance to the utility of its annotation, and the accuracy of bioinformatic analyses derived from it. Currently-available methods of computational gene prediction, while on the whole successful, frequentl...

journal_title：BMC genomics

authors： Dunne MP,Kelly S

更新日期：2018-04-27 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

authors： Guo J,Wang Q,Liu L,Ren S,Li S,Liao P,Zhao Z,Lu C,Jiang B,Sunkar R,Zheng Y

更新日期：2019-04-18 00:00:00

abstract：BACKGROUND:The tetraploid durum wheat (Triticum turgidum L. ssp. durum Desf. Husnot) is an important crop which provides the raw material for pasta production and a valuable source of genetic diversity for breeding hexaploid wheat (Triticum aestivum L.). Future breeding efforts to enhance yield potential and climate re...

journal_title：BMC genomics

authors： Vendramin V,Ormanbekova D,Scalabrin S,Scaglione D,Maccaferri M,Martelli P,Salvi S,Jurman I,Casadio R,Cattonaro F,Tuberosa R,Massi A,Morgante M

更新日期：2019-04-10 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

abstract：BACKGROUND:Codon usage analysis has been a classical topic for decades and has significances for studies of evolution, mRNA translation, and new gene discovery, etc. While the codon usage varies among different members of the plant kingdom, indicating the necessity for species-specific study, this work has mostly been ...

journal_title：BMC genomics

authors： Feng C,Xu CJ,Wang Y,Liu WL,Yin XR,Li X,Chen M,Chen KS

更新日期：2013-10-25 00:00:00

abstract：BACKGROUND:Pathogen perception by plants is mediated by plasma membrane-localized immune receptors that have varied extracellular domains. Lectin receptor kinases (LecRKs) are among these receptors and are subdivided into 3 classes, C-type LecRKs (C-LecRKs), L-type LecRKs (L-LecRKs) and G-type LecRKs (G-LecRKs). While ...

journal_title：BMC genomics

authors： Teixeira MA,Rajewski A,He J,Castaneda OG,Litt A,Kaloshian I

更新日期：2018-04-06 00:00:00

abstract：BACKGROUND:Transposable elements (TEs) are mobile genetic sequences that randomly propagate within their host's genome. This mobility has the potential to affect gene transcription and cause disease. However, TEs are technically challenging to identify, which complicates efforts to assess the impact of TE insertions on...

journal_title：BMC genomics

authors： Kvikstad EM,Piazza P,Taylor JC,Lunter G

更新日期：2018-02-01 00:00:00

abstract：BACKGROUND:Genetic populations provide the basis for a wide range of genetic and genomic studies and have been widely used in genetic mapping, gene discovery and genomics-assisted breeding. Chromosome segment substitution lines (CSSLs) are the most powerful tools for the detection and precise mapping of quantitative tr...

journal_title：BMC genomics

authors： Xu J,Zhao Q,Du P,Xu C,Wang B,Feng Q,Liu Q,Tang S,Gu M,Han B,Liang G

更新日期：2010-11-24 00:00:00

abstract：BACKGROUND:Filarial nematodes cause debilitating human diseases. While treatable, recent evidence suggests drug resistance is developing, necessitating the development of novel targets and new treatment options. Although transcriptomic and proteomic studies around the nematode life cycle have greatly enhanced our knowl...

journal_title：BMC genomics

authors： Luck AN,Anderson KG,McClung CM,VerBerkmoes NC,Foster JM,Michalski ML,Slatko BE

更新日期：2015-11-11 00:00:00

abstract：BACKGROUND:Bombyx mori was domesticated from the Chinese wild silkworm, Bombyx mandarina. Wild and domestic silkworms are good models in which to investigate genes related to silk protein synthesis that may be differentially expressed in silk glands, because their silk productions are very different. Here we used the m...

journal_title：BMC genomics

authors： Fang SM,Hu BL,Zhou QZ,Yu QY,Zhang Z

更新日期：2015-02-06 00:00:00

abstract：BACKGROUND:In contrast to unidirectional promoters wherein antisense transcription results in short transcripts which are rapidly degraded, bidirectional promoters produce mature transcripts in both sense and antisense orientation. To understand the molecular mechanism of how productive bidirectional transcription is r...

journal_title：BMC genomics

authors： Jangid RK,Kelkar A,Muley VY,Galande S

更新日期：2018-05-02 00:00:00

abstract：BACKGROUND:The increasing resistance of Plasmodium, the malaria parasites, to multiple commonly used drugs has underscored the urgent need to develop effective antimalarial drugs and vaccines. The new direction of genomics-driven target discovery has become possible with the completion of parasite genome sequencing, wh...

journal_title：BMC genomics

authors： Cai H,Gu J,Wang Y

更新日期：2010-12-01 00:00:00

abstract：:After publication of [1], the authors were informed by John A. Rhodes of a counterexample to Theorem 11 of [1]. ...

journal_title：BMC genomics

authors： Nute M,Chou J,Molloy EK,Warnow T

更新日期：2020-02-10 00:00:00

abstract：BACKGROUND:Changes in gene regulation are thought to be crucial for the adaptation of organisms to their environment. Transcriptome analyses can be used to identify candidate genes for ecological adaptation, but can be complicated by variation in gene expression between tissues, sexes, or individuals. Here we use high-...

journal_title：BMC genomics

authors： Catalán A,Hutter S,Parsch J

更新日期：2012-11-21 00:00:00

abstract：BACKGROUND:The TALLYHO/Jng (TH) mouse is a polygenic model for obesity and type 2 diabetes first described in the literature in 2001. The origin of the TH strain is an outbred colony of the Theiler Original strain and mice derived from this source were selectively bred for male hyperglycemia establishing an inbred stra...

journal_title：BMC genomics

authors： Denvir J,Boskovic G,Fan J,Primerano DA,Parkman JK,Kim JH

更新日期：2016-11-11 00:00:00

abstract：BACKGROUND:Insertion sequences (ISs) are approximately 1 kbp long "jumping" genes found in prokaryotes. ISs encode the protein Transposase, which facilitates the excision and reinsertion of ISs in genomes, making these sequences a type of class I ("cut-and-paste") Mobile Genetic Elements. ISs are proposed to be involve...

journal_title：BMC genomics

authors： Vigil-Stenman T,Larsson J,Nylander JA,Bergman B

更新日期：2015-03-17 00:00:00

abstract：BACKGROUND:Dermal papilla cells (DPCs), the "signaling center" of hair follicle (HF), delicately master continual growth of hair in mammals including cashmere, the fine fiber annually produced by secondary HF embedded in cashmere goat skins. Such unparalleled capacity bases on their exquisite character in instructing t...

journal_title：BMC genomics

authors： Ma S,Wang Y,Zhou G,Ding Y,Yang Y,Wang X,Zhang E,Chen Y

更新日期：2019-06-20 00:00:00

abstract：BACKGROUND:Lipopolysaccharide (LPS) endotoxin stimulates pro-inflammatory pathways and is a key player in the pathological mechanisms involved in the development of endometritis. This study aimed to investigate LPS-induced DNA methylation changes in bovine endometrial epithelial cells (bEECs), which may affect endometr...

journal_title：BMC genomics

authors： Jhamat N,Niazi A,Guo Y,Chanrot M,Ivanova E,Kelsey G,Bongcam-Rudloff E,Andersson G,Humblot P

更新日期：2020-06-03 00:00:00

abstract：BACKGROUND:Distinguishing orthologous and paralogous relationships between genes across multiple species is essential for comparative genomic analyses. Various computational approaches have been developed to resolve these evolutionary relationships, but strong trade-offs between precision and recall of orthologue predi...

journal_title：BMC genomics

authors： Rane RV,Oakeshott JG,Nguyen T,Hoffmann AA,Lee SF

更新日期：2017-08-31 00:00:00

abstract：BACKGROUND:Floral transition is a critical event in the life cycle of a flowering plant as it determines its reproductive success. Despite extensive studies of specific genes that regulate this process, the global changes in transcript expression profiles at the point when a vegetative meristem transitions into an infl...

journal_title：BMC genomics

authors： Klepikova AV,Logacheva MD,Dmitriev SE,Penin AA

更新日期：2015-06-18 00:00:00

abstract：BACKGROUND:The genome of the carnivorous marsupial, the Tasmanian devil (Sarcophilus harrisii, Order: Dasyuromorphia), was sequenced in the hopes of finding a cure for or gaining a better understanding of the contagious devil facial tumor disease that is threatening the species' survival. To better understand the Tasma...

journal_title：BMC genomics

authors： Nilsson MA,Janke A,Murchison EP,Ning Z,Hallström BM

更新日期：2012-05-06 00:00:00

abstract：BACKGROUND:Ashbya gossypii is a filamentous Saccharomycete used for the industrial production of riboflavin that has been recently explored as a host system for recombinant protein production. To gain insight into the protein secretory pathway of this biotechnologically relevant fungus, we undertook genome-wide analyse...

journal_title：BMC genomics

authors： Aguiar TQ,Ribeiro O,Arvas M,Wiebe MG,Penttilä M,Domingues L

更新日期：2014-12-18 00:00:00

abstract：BACKGROUND:The sustainability of poultry farming relies on the development of more efficient and autonomous production systems in terms of feed supply. This implies a better integration of adaptive traits in breeding programs, including digestive efficiency, in order to favor the use of a wider variety of feedstuffs. T...

journal_title：BMC genomics

authors： Juanchich A,Hennequet-Antier C,Cabau C,Le Bihan-Duval E,Duclos MJ,Mignon-Grasteau S,Narcy A

更新日期：2018-12-13 00:00:00

abstract：BACKGROUND:We previously described the first respiratory Saccharomyces cerevisiae strain, KOY.TM6*P, by integrating the gene encoding a chimeric hexose transporter, Tm6*, into the genome of an hxt null yeast. Subsequently we transferred this respiratory phenotype in the presence of up to 50 g/L glucose to a yeast strai...

journal_title：BMC genomics

authors： Bonander N,Ferndahl C,Mostad P,Wilks MD,Chang C,Showe L,Gustafsson L,Larsson C,Bill RM

更新日期：2008-07-31 00:00:00

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

authors： Tretina K,Pelle R,Silva JC

更新日期：2016-02-20 00:00:00

abstract：BACKGROUND:Diversity in rates of gene expression is essential for basic cell functions and is controlled by a variety of intricate mechanisms. Revealing general mechanisms that control gene expression is important for understanding normal and pathological cell functions and for improving the design of expression system...

journal_title：BMC genomics

authors： Moshonov S,Elfakess R,Golan-Mashiach M,Sinvani H,Dikstein R

更新日期：2008-02-25 00:00:00

abstract：BACKGROUND:Evolutionary theory indicates that the dynamics of aging in the soma and reproductive tissues may be distinct. This difference arises from the fact that only the germline lineage establishes future generations. In the soma, changes in the landscape of heterochromatin have been proposed to have an important r...

journal_title：BMC genomics

authors： Erwin AA,Blumenstiel JP

更新日期：2019-04-23 00:00:00