Improving the performance of true single molecule sequencing for ancient DNA.

abstract：BACKGROUND:Larval developmental patterns are extremely varied both between and within phyla, however the genetic mechanisms leading to this diversification are poorly understood. We assembled and compared the developmental transcriptomes for two sea biscuit species (Echinodermata: Echinoidea) with differing patterns of...

journal_title：BMC genomics

authors： Armstrong AF,Grosberg RK

更新日期：2018-05-18 00:00:00

abstract：BACKGROUND:Inadvertent sample swaps are a real threat to data quality in any medium to large scale omics studies. While matches between samples from the same individual can in principle be identified from a few well characterized single nucleotide polymorphisms (SNPs), omics data types often only provide low to moderat...

journal_title：BMC genomics

authors： Westphal M,Frankhouser D,Sonzone C,Shields PG,Yan P,Bundschuh R

更新日期：2019-12-30 00:00:00

abstract：BACKGROUND:Male and female vertebrates typically differ in a range of characteristics, from morphology to physiology to behavior, which are influenced by factors such as the social environment and the internal hormonal and genetic milieu. However, sex differences in gene expression profiles in the brains of vertebrates...

journal_title：BMC genomics

authors： Wong RY,McLeod MM,Godwin J

更新日期：2014-10-17 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:Serine/threonine kinase 33 (STK33) has been shown to be conserved across all major vertebrate classes including reptiles, mammals, amphibians and fish, suggesting its importance within vertebrates. It has been shown to phosphorylate vimentin and might play a role in spermatogenesis and organ ontogenesis. In ...

journal_title：BMC genomics

authors： Lautwein T,Lerch S,Schäfer D,Schmidt ER

更新日期：2015-07-22 00:00:00

abstract：BACKGROUND:Prokaryotic translation initiation involves the proper docking, anchoring, and accommodation of mRNA to the 30S ribosomal subunit. Three initiation factors (IF1, IF2, and IF3) and some ribosomal proteins mediate the assembly and activation of the translation initiation complex. Although the interaction betwe...

journal_title：BMC genomics

authors： Omotajo D,Tate T,Cho H,Choudhary M

更新日期：2015-08-14 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: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:Multidrug- (MDR) and extensively drug resistant (XDR) tuberculosis (TB) presents a challenge to disease control and elimination goals. In Lisbon, Portugal, specific and successful XDR-TB strains have been found in circulation for almost two decades. RESULTS:In the present study we have genotyped and sequenc...

journal_title：BMC genomics

authors： Perdigão J,Silva H,Machado D,Macedo R,Maltez F,Silva C,Jordao L,Couto I,Mallard K,Coll F,Hill-Cawthorne GA,McNerney R,Pain A,Clark TG,Viveiros M,Portugal I

更新日期：2014-11-18 00:00:00

abstract：BACKGROUND:It is widely known that castration has a significant effect on the accumulation of adipose tissue. microRNAs (miRNAs) are known to be involved in fat deposition and to be regulated by the androgen-induced androgen receptor (AR). However, there is little understanding of the relationship between miRNAs and fa...

journal_title：BMC genomics

authors： Bai Y,Huang JM,Liu G,Zhang JB,Wang JY,Liu CK,Fang MY

更新日期：2014-01-20 00:00:00

abstract：BACKGROUND:The ribosome is a central player in the translation system, which in mammals consists of four RNA species and 79 ribosomal proteins (RPs). The control mechanisms of gene expression and the functions of RPs are believed to be identical. Most RP genes have common promoters and were therefore assumed to have a ...

journal_title：BMC genomics

authors： Ishii K,Washio T,Uechi T,Yoshihama M,Kenmochi N,Tomita M

更新日期：2006-02-28 00:00:00

abstract：BACKGROUND:Large-scale comparison of metazoan genomes has revealed that a significant fraction of genes of the last common ancestor of Bilateria (Urbilateria) is lost in each animal lineage. This event could be one of the underlying mechanisms involved in generating metazoan diversity. However, the present functions of...

journal_title：BMC genomics

authors： Matsui T,Yamamoto T,Wyder S,Zdobnov EM,Kadowaki T

更新日期：2009-01-12 00:00:00

abstract：BACKGROUND:The identification of cell type-specific genes (markers) is an essential step for the deconvolution of the cellular fractions, primarily, from the gene expression data of a bulk sample. However, the genes with significant changes identified by pair-wise comparisons cannot indeed represent the specificity of ...

journal_title：BMC genomics

authors： Li H,Sharma A,Ming W,Sun X,Liu H

更新日期：2020-09-23 00:00:00

abstract：BACKGROUND:Bulbs of the ornamental flower Lilium pumilum enter a period of dormancy after flowering in spring, and require exposure to cold for a period of time in order to release dormancy. Previous studies focused mainly on anatomical, physiological and biochemical changes during dormancy release. There are no dorman...

journal_title：BMC genomics

authors： Wang W,Su X,Tian Z,Liu Y,Zhou Y,He M

更新日期：2018-03-14 00:00:00

abstract：BACKGROUND:Cornu aspersum is a quite intriguing species from the point of view of ecology and evolution and its potential use in medical and environmental applications. It is a species of economic importance since it is farmed and used for culinary purposes. However, the genomic tools that would allow a thorough insigh...

journal_title：BMC genomics

authors： Parmakelis A,Kotsakiozi P,Kontos CK,Adamopoulos PG,Scorilas A

更新日期：2017-06-28 00:00:00

abstract：BACKGROUND:Complete or near-complete genomic sequence information is presently only available for a few plant species representing a large phylogenetic diversity among plants. In order to effectively transfer this information to species lacking sequence information, comparative genomic tools need to be developed. Molec...

journal_title：BMC genomics

authors： Fredslund J,Madsen LH,Hougaard BK,Nielsen AM,Bertioli D,Sandal N,Stougaard J,Schauser L

更新日期：2006-08-14 00:00:00

abstract：BACKGROUND:S. erythraea is a Gram-positive filamentous bacterium used for the industrial-scale production of erythromycin A which is of high clinical importance. In this work, we sequenced the whole genome of a high-producing strain (E3) obtained by random mutagenesis and screening from the wild-type strain NRRL23338, ...

journal_title：BMC genomics

authors： Li YY,Chang X,Yu WB,Li H,Ye ZQ,Yu H,Liu BH,Zhang Y,Zhang SL,Ye BC,Li YX

更新日期：2013-07-31 00:00:00

abstract：BACKGROUND:Short non-coding RNAs (ncRNAs) perform their cellular functions in ribonucleoprotein (RNP) complexes, which are also essential for maintaining the stability of the ncRNAs. Depletion of individual protein components of non-coding ribonucleoprotein (ncRNP) particles by RNA interference (RNAi) may therefore aff...

journal_title：BMC genomics

authors： Aftab MN,He H,Skogerbø G,Chen R

更新日期：2008-06-11 00:00:00

abstract：BACKGROUND:Genome-wide disease-gene finding approaches may sometimes provide us with a long list of candidate genes. Since using pure experimental approaches to verify all candidates could be expensive, a number of network-based methods have been developed to prioritize candidates. Such tools usually have a set of para...

journal_title：BMC genomics

authors： Hsu CL,Huang YH,Hsu CT,Yang UC

更新日期：2011-11-30 00:00:00

abstract：BACKGROUND:Cucumber, Cucumis sativus L. is an important vegetable crop worldwide. Until very recently, cucumber genetic and genomic resources, especially molecular markers, have been very limited, impeding progress of cucumber breeding efforts. Microsatellites are short tandemly repeated DNA sequences, which are freque...

journal_title：BMC genomics

authors： Cavagnaro PF,Senalik DA,Yang L,Simon PW,Harkins TT,Kodira CD,Huang S,Weng Y

更新日期：2010-10-15 00:00:00

abstract：BACKGROUND:Daphnia (Crustacea: Cladocera) plays a central role in standing aquatic ecosystems, has a well known ecology and is widely used in population studies and environmental risk assessments. Daphnia magna is, especially in Europe, intensively used to study stress responses of natural populations to pollutants, cl...

journal_title：BMC genomics

authors： Orsini L,Jansen M,Souche EL,Geldof S,De Meester L

更新日期：2011-06-13 00:00:00

abstract：BACKGROUND:Lack of power and reproducibility are caveats of genetic association studies of common complex diseases. Indeed, the heterogeneity of disease etiology demands that causal models consider the simultaneous involvement of multiple genes. Rothman's sufficient-cause model, which is well known in epidemiology, pro...

journal_title：BMC genomics

authors： Lynn KS,Lu CH,Yang HY,Hsu WL,Pan WH

更新日期：2013-07-23 00:00:00

abstract：BACKGROUND:The astounding regenerative abilities of planarian flatworms prompt steadily growing interest in examining their molecular foundation. Planarian regeneration was found to require hundreds of genes and is hence a complex process. Thus, RNA interference followed by transcriptome-wide gene expression analysis b...

journal_title：BMC genomics

authors： Kim IV,Ross EJ,Dietrich S,Döring K,Sánchez Alvarado A,Kuhn CD

更新日期：2019-11-29 00:00:00

abstract：BACKGROUND:Yellow-feathered chickens (YFCs) have a long history in China. They are well-known for the nutritional and commercial importance attributable to their yellow color phenotype. Currently, there is a huge paucity in knowledge of the genetic determinants responsible for phenotypic and biochemical properties of t...

journal_title：BMC genomics

authors： Huang X,Otecko NO,Peng M,Weng Z,Li W,Chen J,Zhong M,Zhong F,Jin S,Geng Z,Luo W,He D,Ma C,Han J,Ommeh SC,Zhang Y,Zhang X,Du B

更新日期：2020-04-20 00:00:00

abstract：BACKGROUND:Mobile genetic elements (MGEs) play an essential role in genome rearrangement and evolution, and are widely used as an important genetic tool. RESULTS:In this article, we present genetic maps of recently active Insertion Sequence (IS) elements, the simplest form of MGEs, for all sequenced cyanobacteria and ...

journal_title：BMC genomics

authors： Zhou F,Olman V,Xu Y

更新日期：2008-01-24 00:00:00

abstract：BACKGROUND:MicroRNAs (miRNAs) regulate the expression of target genes by mediating gene silencing in both plants and animals. The miRNA targets have been extensively investigated in Arabidopsis and rice using computational prediction, experimental validation by overexpression in transgenic plants, and by degradome or P...

journal_title：BMC genomics

authors： Shamimuzzaman M,Vodkin L

更新日期：2012-07-16 00:00:00

abstract：BACKGROUND:In contrast to wild species, which have typically evolved phenotypes over long periods of natural selection, domesticates rapidly gained human-preferred agronomic traits in a relatively short-time frame via artificial selection. Under domesticated conditions, many traits can be observed that cannot only be d...

journal_title：BMC genomics

authors： Xiang H,Li X,Dai F,Xu X,Tan A,Chen L,Zhang G,Ding Y,Li Q,Lian J,Willden A,Guo Q,Xia Q,Wang J,Wang W

更新日期：2013-09-23 00:00:00

abstract：BACKGROUND:Fusarium head blight (FHB), caused mainly by Fusarium graminearum (Fg) Schwabe (teleomorph: Gibberellazeae Schwble), brings serious damage to wheat production. Chinese wheat landrace Wangshuibai is one of the most important resistance sources in the world. The knowledge of mechanism underlying its resistance...

journal_title：BMC genomics

authors： Xiao J,Jin X,Jia X,Wang H,Cao A,Zhao W,Pei H,Xue Z,He L,Chen Q,Wang X

更新日期：2013-03-21 00:00:00

abstract：BACKGROUND:The reconstruction of gene regulatory networks from high-throughput "omics" data has become a major goal in the modelling of living systems. Numerous approaches have been proposed, most of which attempt only "one-shot" reconstruction of the whole network with no intervention from the user, or offer only simp...

journal_title：BMC genomics

authors： Kadupitige SR,Leung KC,Sellmeier J,Sivieng J,Catchpoole DR,Bain ME,Gaëta BA

更新日期：2009-12-03 00:00:00

abstract：UNLABELLED:Transcription-induced chimerism, a mechanism involving the transcription and intergenic splicing of two consecutive genes, has recently been estimated to account for approximately 5% of the human transcriptome. Despite this prevalence, the regulation and function of these fused transcripts remains largely un...

journal_title：BMC genomics

authors： Wang K,Ubriaco G,Sutherland LC

更新日期：2007-10-01 00:00:00