Evolution of cis- and trans-regulatory divergence in the chicken genome between two contrasting breeds analyzed using three tissue types at one-day-old.

abstract：BACKGROUND:Comparative genomics has emerged as a promising means of unravelling the molecular networks underlying complex traits such as drought tolerance. Here we assess the genotype-dependent component of the drought-induced transcriptome response in two poplar genotypes differing in drought tolerance. Drought-induce...

journal_title：BMC genomics

authors： Cohen D,Bogeat-Triboulot MB,Tisserant E,Balzergue S,Martin-Magniette ML,Lelandais G,Ningre N,Renou JP,Tamby JP,Le Thiec D,Hummel I

更新日期：2010-11-12 00:00:00

abstract：BACKGROUND:Litchi (Litchi chinensis Sonn.) is an economically important evergreen fruit tree widely cultivated in subtropical areas. Low temperature is absolutely required for floral induction of litchi, but its molecular mechanism is not fully understood. Leaves of litchi played a key role during floral induction and ...

journal_title：BMC genomics

authors： Zhang H,Shen J,Wei Y,Chen H

更新日期：2017-05-10 00:00:00

abstract：BACKGROUND:Homeobox-containing genes encode crucial transcription factors involved in animal, plant and fungal development, and changes to homeobox genes have been linked to the evolution of novel body plans and morphologies. In animals, some homeobox genes are clustered together in the genome, either as remnants from ...

journal_title：BMC genomics

authors： Li Y,Nong W,Baril T,Yip HY,Swale T,Hayward A,Ferrier DEK,Hui JHL

更新日期：2020-10-15 00:00:00

abstract：BACKGROUND:Chlamydia pecorum is an important pathogen of domesticated livestock including sheep, cattle and pigs. This pathogen is also a key factor in the decline of the koala in Australia. We sequenced the genomes of three koala C. pecorum strains, isolated from the urogenital tracts and conjunctiva of diseased koala...

journal_title：BMC genomics

authors： Bachmann NL,Fraser TA,Bertelli C,Jelocnik M,Gillett A,Funnell O,Flanagan C,Myers GS,Timms P,Polkinghorne A

更新日期：2014-08-08 00:00:00

abstract：BACKGROUND:Many biological systems respond to the presence or absence of gravity. Since experiments performed in space are expensive and can only be undertaken infrequently, Earth-based simulation techniques are used to investigate the biological response to weightlessness. A high gradient magnetic field can be used to...

journal_title：BMC genomics

authors： Herranz R,Larkin OJ,Dijkstra CE,Hill RJ,Anthony P,Davey MR,Eaves L,van Loon JJ,Medina FJ,Marco R

更新日期：2012-02-01 00:00:00

abstract：BACKGROUND:Polypyrimidine-tract binding proteins (PTBs) are ubiquitous RNA-binding proteins in plants and animals that play diverse role in RNA metabolic processes. PTB proteins bind to target RNAs through motifs rich in cytosine/uracil residues to fine-tune transcript metabolism. Among tuber and root crops, potato has...

journal_title：BMC genomics

authors： Kondhare KR,Kumar A,Hannapel DJ,Banerjee AK

更新日期：2018-02-07 00:00:00

abstract：BACKGROUND:Intellectual Disability (ID) is among the most common global disorders, yet etiology is unknown in ~30% of patients despite clinical assessment. Whole genome sequencing (WGS) is able to interrogate the entire genome, providing potential to diagnose idiopathic patients. METHODS:We conducted WGS on eight chil...

journal_title：BMC genomics

authors： Zahir FR,Mwenifumbo JC,Chun HE,Lim EL,Van Karnebeek CDM,Couse M,Mungall KL,Lee L,Makela N,Armstrong L,Boerkoel CF,Langlois SL,McGillivray BM,Jones SJM,Friedman JM,Marra MA

更新日期：2017-05-24 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

abstract：BACKGROUND:Plant microRNAs (miRNAs) are involved in post-transcriptional regulatory mechanisms of several processes, including the response to biotic and abiotic stress, often contributing to the adaptive response of the plant to adverse conditions. In addition to conserved miRNAs, found in a wide range of plant specie...

journal_title：BMC genomics

authors： De Paola D,Cattonaro F,Pignone D,Sonnante G

更新日期：2012-01-24 00:00:00

abstract：BACKGROUND:Recent molecular studies have revealed considerably more diversity in the phylum Chlamydiae than was previously thought. Evidence is growing that many of these novel chlamydiae may be important pathogens in humans and animals. A significant barrier to characterising these novel chlamydiae is the requirement ...

journal_title：BMC genomics

authors： Taylor-Brown A,Bachmann NL,Borel N,Polkinghorne A

更新日期：2016-09-05 00:00:00

abstract：BACKGROUND:The papaya Y chromosome has undergone a degenerative expansion from its ancestral autosome, as a consequence of recombination suppression in the sex determining region of the sex chromosomes. The non-recombining feature led to the accumulation of repetitive sequences in the male- or hermaphrodite-specific re...

journal_title：BMC genomics

authors： Na JK,Wang J,Ming R

更新日期：2014-05-04 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

authors： Voic H,Li X,Jang JH,Zou C,Sundd P,Alder J,Rojas M,Chandra D,Randell S,Mallampalli RK,Tesfaigzi Y,Ryba T,Nyunoya T

更新日期：2019-01-09 00:00:00

abstract：BACKGROUND:Parasites employ proteases to evade host immune systems, feed and replicate and are often the target of anti-parasite strategies to disrupt these interactions. Myxozoans are obligate cnidarian parasites, alternating between invertebrate and fish hosts. Their genes are highly divergent from other metazoans, a...

journal_title：BMC genomics

authors： Hartigan A,Kosakyan A,Pecková H,Eszterbauer E,Holzer AS

更新日期：2020-06-16 00:00:00

abstract：BACKGROUND:Small insertions and deletions (InDels) constitute the second most abundant class of genetic variants and have been found to be associated with many traits and diseases. The present study reports on the detection and characterisation of about 883 K high quality InDels from the whole-genome analysis of severa...

journal_title：BMC genomics

authors： Boschiero C,Gheyas AA,Ralph HK,Eory L,Paton B,Kuo R,Fulton J,Preisinger R,Kaiser P,Burt DW

更新日期：2015-07-31 00:00:00

abstract：BACKGROUND:Genome rearrangement describes gross changes of chromosomal regions, plays an important role in evolutionary biology and has profound impacts on phenotype in organisms ranging from microbes to humans. With more and more complete genomes accomplished, lots of genomic comparisons have been conducted in order t...

journal_title：BMC genomics

authors： Wang D,Li S,Guo F,Ning K,Wang L

更新日期：2017-03-29 00:00:00

abstract：BACKGROUND:Repeat masking is an important step in the EST analysis pipeline. For new species, genomic knowledge is scarce and good repeat libraries are typically unavailable. In these cases it is common practice to mask against known repeats from other species (i.e., model organisms). There are few studies that investi...

journal_title：BMC genomics

authors： Malde K,Jonassen I

更新日期：2008-01-18 00:00:00

abstract：BACKGROUND:Integrons are genomic elements that mediate horizontal gene transfer by inserting and removing genetic material using site-specific recombination. Integrons are commonly found in bacterial genomes, where they maintain a large and diverse set of genes that plays an important role in adaptation and evolution. ...

journal_title：BMC genomics

authors： Buongermino Pereira M,Österlund T,Eriksson KM,Backhaus T,Axelson-Fisk M,Kristiansson E

更新日期：2020-07-20 00:00:00

abstract：BACKGROUND:Mitochondrial genomes comprise a small but critical component of the total DNA in eukaryotic organisms. They encode several key proteins for the cell's major energy producing apparatus, the mitochondrial respiratory chain. Additionally, their nucleotide and amino acid sequences are of great utility as marker...

journal_title：BMC genomics

authors： Lloyd RE,Foster PG,Guille M,Littlewood DT

更新日期：2012-09-19 00:00:00

abstract：BACKGROUND:Cattle and other ruminants have evolved the ability to derive most of their metabolic energy requirement from otherwise indigestible plant matter through a symbiotic relationship with plant fibre degrading microbes within a specialised fermentation chamber, the rumen. The genetic changes underlying the evolu...

journal_title：BMC genomics

authors： Wheeler TT,Hood KA,Maqbool NJ,McEwan JC,Bingle CD,Zhao S

更新日期：2007-03-15 00:00:00

abstract：BACKGROUND:Medicago truncatula has been chosen as a model species for genomic studies. It is closely related to an important legume, alfalfa. Transporters are a large group of membrane-spanning proteins. They deliver essential nutrients, eject waste products, and assist the cell in sensing environmental conditions by f...

journal_title：BMC genomics

authors： Miao Z,Li D,Zhang Z,Dong J,Su Z,Wang T

更新日期：2012-02-06 00:00:00

abstract：BACKGROUND:Bacteriophages that infect the opportunistic pathogen Pseudomonas aeruginosa have been classified into several groups. One of them, which includes temperate phage particles with icosahedral heads and long flexible tails, bears genomes whose architecture and replication mechanism, but not their nucleotide seq...

journal_title：BMC genomics

authors： Cazares A,Mendoza-Hernández G,Guarneros G

更新日期：2014-12-19 00:00:00

abstract：BACKGROUND:Understanding the diversity of repair outcomes after introducing a genomic cut is essential for realizing the therapeutic potential of genomic editing technologies. Targeted PCR amplification combined with Next Generation Sequencing (NGS) or enzymatic digestion, while broadly used in the genome editing field...

journal_title：BMC genomics

authors： Giannoukos G,Ciulla DM,Marco E,Abdulkerim HS,Barrera LA,Bothmer A,Dhanapal V,Gloskowski SW,Jayaram H,Maeder ML,Skor MN,Wang T,Myer VE,Wilson CJ

更新日期：2018-03-21 00:00:00

abstract：BACKGROUND:With advances in next generation sequencing technology and analysis methods, single nucleotide variants (SNVs) and indels can be detected with high sensitivity and specificity in exome sequencing data. Recent studies have demonstrated the ability to detect disease-causing copy number variants (CNVs) in exome...

journal_title：BMC genomics

authors： Samarakoon PS,Sorte HS,Stray-Pedersen A,Rødningen OK,Rognes T,Lyle R

更新日期：2016-01-14 00:00:00

abstract：BACKGROUND:In mammalian cells changes in intracellular pH (pHi), which are predominantly controlled by activity of plasma membrane ion exchangers, regulate a diverse range of normal and pathological cellular processes. How changes in pHi affect distinct cellular processes has primarily been determined by evaluating pro...

journal_title：BMC genomics

authors： Putney LK,Barber DL

更新日期：2004-07-16 00:00:00

abstract：BACKGROUND:The orphan nuclear receptor TR4 (human testicular receptor 4 or NR2C2) plays a pivotal role in a variety of biological and metabolic processes. With no known ligand and few known target genes, the mode of TR4 function was unclear. RESULTS:We report the first genome-wide identification and characterization o...

journal_title：BMC genomics

authors： O'Geen H,Lin YH,Xu X,Echipare L,Komashko VM,He D,Frietze S,Tanabe O,Shi L,Sartor MA,Engel JD,Farnham PJ

更新日期：2010-12-02 00:00:00

abstract：BACKGROUND:Sexual reproduction of scleractinians has captured the attention of researchers and the general public for decades. Although extensive ecological data has been acquired, underlying molecular and cellular mechanisms remain largely unknown. In this study, to better understand mechanisms underlying gametogenesi...

journal_title：BMC genomics

authors： Chiu YL,Shikina S,Yoshioka Y,Shinzato C,Chang CF

更新日期：2020-10-21 00:00:00

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:Toxigenic Vibrio cholerae serogroup O1 is the causative pathogen in the sixth and seventh cholera pandemics. Cholera toxin is the major virulent factor but other virulence and virulence-related factors play certain roles in the pathogenesis and survival in the host. Along with the evolution of the epidemic s...

journal_title：BMC genomics

authors： Li Z,Pang B,Wang D,Li J,Xu J,Fang Y,Lu X,Kan B

更新日期：2019-05-09 00:00:00

abstract：BACKGROUND:Mitochondrial genomes (mtDNA) of multicellular animals (Metazoa) with bilateral symmetry (Bilateria) are compact and usually carry 13 protein-coding genes for subunits of three respiratory complexes and ATP synthase. However, occasionally reported exceptions to this typical mtDNA organization prompted specul...

journal_title：BMC genomics

authors： Szafranski P

更新日期：2017-03-31 00:00:00

abstract：BACKGROUND:Climate plays an essential role in forest health, and climate change may increase forest productivity losses due to abiotic and biotic stress. Increased temperature leads to the increased formation of ozone (O3). Ozone is formed by the interaction of sunlight, molecular oxygen and by the reactions of chemica...

journal_title：BMC genomics

authors： Soltani N,Best T,Grace D,Nelms C,Shumaker K,Romero-Severson J,Moses D,Schuster S,Staton M,Carlson J,Gwinn K

更新日期：2020-02-14 00:00:00