共查询到20条相似文献,搜索用时 375 毫秒
1.
Ruth?Tachezy Annabel?Rector Marta?Havelkova Elke?Wollants Pierre?Fiten Ghislain?Opdenakker A?Bennett?Jenson John?P?Sundberg Marc?Van Ranst
Background
An avian papillomavirus genome has been cloned from a cutaneous exophytic papilloma from an African grey parrot (Psittacus erithacus). The nucleotide sequence, genome organization, and phylogenetic position of the Psittacus erithacus papillomavirus (PePV) were determined. This PePV sequence represents the first complete avian papillomavirus genome defined. 相似文献2.
Chaos game representation for comparison of whole genomes 总被引:1,自引:0,他引:1
Background
Chaos game representation of genome sequences has been used for visual representation of genome sequence patterns as well as alignment-free comparisons of sequences based on oligonucleotide frequencies. However the potential of this representation for making alignment-based comparisons of whole genome sequences has not been exploited. 相似文献3.
Thomas Thiel Andreas Graner Robbie Waugh Ivo Grosse Timothy J Close Nils Stein 《BMC evolutionary biology》2009,9(1):209
Background
Well preserved genomic colinearity among agronomically important grass species such as rice, maize, Sorghum, wheat and barley provides access to whole-genome structure information even in species lacking a reference genome sequence. We investigated footprints of whole-genome duplication (WGD) in barley that shaped the cereal ancestor genome by analyzing shared synteny with rice using a ~2000 gene-based barley genetic map and the rice genome reference sequence. 相似文献4.
Geraldine AC Lim Erica G Jewell Xi Li Timothy A Erwin Christopher Love Jacqueline Batley German Spangenberg David Edwards 《BMC plant biology》2007,7(1):40
Background
Molecular genetic maps provide a means to link heritable traits with underlying genome sequence variation. Several genetic maps have been constructed for Brassica species, yet to date, there has been no simple means to compare this information or to associate mapped traits with the genome sequence of the related model plant, Arabidopsis. 相似文献5.
Background
In order to take full advantage of the newly available public human genome sequence data and associated annotations, biologists require visualization tools ("genome browsers") that can accommodate the high frequency of alternative splicing in human genes and other complexities. 相似文献6.
Thomas Lingner Stefanie Mühlhausen Toni Gabaldón Cedric Notredame Peter Meinicke 《BMC bioinformatics》2010,11(1):481
Background
Establishing the relationship between an organism's genome sequence and its phenotype is a fundamental challenge that remains largely unsolved. Accurately predicting microbial phenotypes solely based on genomic features will allow us to infer relevant phenotypic characteristics when the availability of a genome sequence precedes experimental characterization, a scenario that is favored by the advent of novel high-throughput and single cell sequencing techniques. 相似文献7.
8.
Background
Analysis of sequence composition is a routine task in genome research. Organisms are characterized by their base composition, dinucleotide relative abundance, codon usage, and so on. Unique subsequences are markers of special interest in genome comparison, expression profiling, and genetic engineering. Relative to a random sequence of the same length, unique subsequences are overrepresented in real genomes. Shortest words absent from a genome have been addressed in two recent studies. 相似文献9.
Background
A key challenge in systems biology is the reconstruction of an organism's metabolic network from its genome sequence. One strategy for addressing this problem is to predict which metabolic pathways, from a reference database of known pathways, are present in the organism, based on the annotated genome of the organism. 相似文献10.
Jean-Marc Celton Alan Christoffels Daniel J Sargent Xiangming Xu D Jasper G Rees 《BMC biology》2010,8(1):155
Background
Determining the position and order of contigs and scaffolds from a genome assembly within an organism's genome remains a technical challenge in a majority of sequencing projects. In order to exploit contemporary technologies for DNA sequencing, we developed a strategy for whole genome single nucleotide polymorphism sequencing allowing the positioning of sequence contigs onto a linkage map using the bin mapping method. 相似文献11.
12.
Gregory J Dick Anders F Andersson Brett J Baker Sheri L Simmons Brian C Thomas A Pepper Yelton Jillian F Banfield 《Genome biology》2009,10(8):R85-16
Background
Analyses of DNA sequences from cultivated microorganisms have revealed genome-wide, taxa-specific nucleotide compositional characteristics, referred to as genome signatures. These signatures have far-reaching implications for understanding genome evolution and potential application in classification of metagenomic sequence fragments. However, little is known regarding the distribution of genome signatures in natural microbial communities or the extent to which environmental factors shape them. 相似文献13.
14.
Uffe Hellsten Mustafa K Khokha Timothy C Grammer Richard M Harland Paul Richardson Daniel S Rokhsar 《BMC biology》2007,5(1):31-14
Background
Ancient whole genome duplications have been implicated in the vertebrate and teleost radiations, and in the emergence of diverse angiosperm lineages, but the evolutionary response to such a perturbation is still poorly understood. The African clawed frog Xenopus laevis experienced a relatively recent tetraploidization ~40 million years ago. Analysis of the considerable amount of EST sequence available for this species together with the genome sequence of the related diploid Xenopus tropicalis provides a unique opportunity to study the genomic response to whole genome duplication. 相似文献15.
Background
The first microbial genome sequence, Haemophilus influenzae, was published in 1995. Since then, more than 400 microbial genome sequences have been completed or commenced. This massive influx of data provides the opportunity to obtain biological insights through comparative genomics. However few tools are available for this scale of comparative analysis. 相似文献16.
Stefan Zauner Peter Lockhart Bettina Stoebe-Maier Paul Gilson Geoffrey I McFadden Uwe G Maier 《BMC evolutionary biology》2006,6(1):38-7
Background
Most genes introduced into phototrophic eukaryotes during the process of endosymbiosis are either lost or relocated into the host nuclear genome. In contrast, gro EL homologues are found in different genome compartments among phototrophic eukaryotes. Comparative sequence analyses of recently available genome data, have allowed us to reconstruct the evolutionary history of these genes and propose a hypothesis that explains the unusual genome distribution of gro EL homologues. 相似文献17.
Background
Whole genome shotgun sequencing produces increasingly higher coverage of a genome with random sequence reads. Progressive whole genome assembly and eventual finishing sequencing is a process that typically takes several years for large eukaryotic genomes. In the interim, all sequence reads of public sequencing projects are made available in repositories such as the NCBI Trace Archive. For a particular locus, sequencing coverage may be high enough early on to produce a reliable local genome assembly. We have developed software, Tracembler, that facilitates in silico chromosome walking by recursively assembling reads of a selected species from the NCBI Trace Archive starting with reads that significantly match sequence seeds supplied by the user. 相似文献18.
Whole genome sequencing of a single Bos taurus animal for single nucleotide polymorphism discovery 总被引:1,自引:0,他引:1
Sebastian H Eck Anna Benet-Pagès Krzysztof Flisikowski Thomas Meitinger Ruedi Fries Tim M Strom 《Genome biology》2009,10(8):R82-8
Background
The majority of the 2 million bovine single nucleotide polymorphisms (SNPs) currently available in dbSNP have been identified in a single breed, Hereford cattle, during the bovine genome project. In an attempt to evaluate the variance of a second breed, we have produced a whole genome sequence at low coverage of a single Fleckvieh bull. 相似文献19.
Barcodes for genomes and applications 总被引:1,自引:0,他引:1