in silico deduction from whole genome sequence databases

... vaccinia RNA polymerase J Biol Chem 1993, 268:2166-2173 48 Chen HT, Hahn S: Binding of TFIIB to RNA polymerase II: Mapping the binding site for the TFIIB zinc ribbon domain within the pre-initiation ... pol II and TFIIB to the promoter [43] In addition, this domain is also the binding site for antimicrobial RNA pol inhibitors including α-amanitin and targetoxin [44-46] The MPV CDV-R L653R substitution ... docking domain binds TFIIB through contact residues 407-RDSGDRIDLRYSK-419 located within a larger conserved 67 amino acid motif [48] The MPV CDV-R K355N mutation lies within the docking domain (in...

Ngày tải lên: 12/08/2014, 04:20

... Gunderson KL: High-resolution genomic profiling of chromosomal aberrations using Infinium whole- genome genotyping Genome Res 2006, 16:1136-1148 Hanahan D, Weinberg RA: The hallmarks of cancer Cell ... certain assumptions For example, by assuming that a certain allelic imbalance occurs in all tumor cells, normal cell contamination becomes the sole driving force behind BAF compression In this ... segmentation may in part be explained by uncertainty in the measured DNA content, which introduces bias in the expected dilution percentages (Table 3) Such bias may explain differences seen in sensitivity...

Ngày tải lên: 14/08/2014, 20:22

... somewhat surprising that the glycoproteins of Kosova Hoti and another strain from Kosovo, 9553-01, differed by 1.9% in complete aa sequence, and up to 4.5% in the mucin-like domain (Table 2) This ... differs from other strains in group V (Fig 2) The mucin-like variable region of Kosova Hoti strain polyprotein stretches from aa 28 to 251 and differs by up to 20.5% from Turkish 200310849 strain ... domain, similarly to the Nigerian IbAr10200 strain [24] In addition, a zinc finger C2H2-type domain (aa 609–632) was found in the L protein of Kosova Hoti, but a previously identified leucine...

Ngày tải lên: 20/06/2014, 01:20

... determination of the amino-terminal amino acid sequence of purified protein was attempted, but no information was obtained, probably due to the protein modification Therefore, the purified protein ... produced by two successive reactions In the amino acid sequence deduced from the amplified cDNA sequence, a 15-amino acid sequence, which was determined by protein sequencing, was observed (Fig 2, grey ... bar indicating 0.05 amino-acid replacement per site terminus that is required for binding to the plasma membrane, thereby being involved in the formation of the corneum [47] Additional amino-terminal...

Ngày tải lên: 17/03/2014, 23:20

... Understanding is a model in the investigator’s mind that describes how the entities relate to each other, a model created in the investigator’s mind as a result of thinking Thinking is thus a kind ... process spanning from femtoseconds to days to seasons to centuries in time domain and from atoms to the global biosphere in spatial domain No single model can describe photosynthesis in its full ... Potentials Within the Canopy III Scaling Photosynthesis from Leaves to Canopy IV Concluding Remarks Acknowledgments References 17 Can Increase in Rubisco Specificity Increase Carbon Gain by Whole Canopy?...

Ngày tải lên: 29/03/2014, 17:20

... supporting the prediction of the presence of a Vpg being encoded in any of the astrovirus genomes, we should note that we did encounter difficulty in obtaining the 5' end of the MLB1 genome until ... cloned and sequenced using standard Sanger sequencing chemistry All amplicons were cloned into pCR4.0 (Invitrogen) These primer pairs were used to confirm the sequence of the viral genome from both ... consensus sequence at the terminal 5' nucleotides of the genome which is not conserved in other astroviruses (data not shown) AstV-MLB1 contained 13 out of the 20 consensus nucleotides, including the...

Ngày tải lên: 20/06/2014, 01:20

... non-coding sequences within quantitative-trait loci Recently developed consomic rat lines, in which an entire chromosome from one inbred strain is introgressed onto the background of a second inbred ... advances in nuclear transfer in the rat [8], the possibility of gene targeting by a combination of these techniques is tantalizingly close In conclusion, the rat genome sequence is already proving ... odorant-binding proteins, the ␣2u-globulin pheromone-binding proteins have also undergone genefamily expansion The orthologous human genomic region possesses a single homolog, probably mirroring the...

Ngày tải lên: 09/08/2014, 20:20

... genes, agglutinin (ALS) genes and genes involved in Genome Biology 2004, 5:230 http://genomebiology.com/2004/5/7/230 Genome Biology 2004, 10 12 13 Genome Biology 2004, 5:230 information 11 interactions ... agglutinin-like sequence (ALS) gene family, thought to be involved in adhesion to and interaction with host surfaces [15] Nevertheless, over half of the What can be gleaned from the genome sequences ... the predominant clade of closely related C albicans strains that represents almost 40% of all isolates worldwide, as determined by DNA fingerprinting [7] and multi-locus sequence typing (A Tavanti,...

Ngày tải lên: 09/08/2014, 20:20

... carried out using continuous exponential growth in g/L L-lactate M9 minimal media at 30°C, resulting in an average 90% increase in the growth rate versus the starting strain To determine the genetic ... adaptation in these strains, the genomes of single colonies from each endpoint culture were sequenced using Nimblegen Comparative Genome Sequencing (CGS) [5] and later 1G Solexa or 2G Solexa sequencing ... growth in lactate minimal media Endpoint Gene Product/duplication Class LactA crp cAMP response protein Regulator hfq RNA binding protein Regulator ydjO Predicted protein - Nucleotide Codon Protein...

Ngày tải lên: 09/08/2014, 20:20

... SNP-containing druggable orthologs Finally, based on druggable human protein domains documented in the DrugBank database, human druggable protein targets were blatted against protein domain data ... Province, from Yunnan Province, from Guangxi Province, and from Guizhou Province; Figure S3 in Additional file 1) Of the 74 deletions, 23 are fixed (homozygous), 45 are polymorphic, and the remaining ... Evolution, Kunming Institute of Zoology and Kunming Primate Research Center, Chinese Academy of Sciences, Kunming 650223, China 3Graduate School of Chinese Academy of Sciences, Beijing 100039, China 4Current...

Ngày tải lên: 09/08/2014, 23:20

... MTCT, we conducted a whole genome scan for fetal susceptibility to maternal HIV infection using information from consenting mother-infant pairs receiving antenatal care in Blantyre, Malawi, a ... described in relation to HIV MTCT Finally, genes involved in the host immune response can play a role in HIV/AIDS susceptibility The valine to isoleucine substitution at codon 64 in the chemokine coreceptor ... SNPs were located within interesting genes, including SNPs near or within genes involved in pregnancy and development (Table 2) An additional SNPs were located near or within genes with immunological...

Ngày tải lên: 11/08/2014, 12:20

Ngày tải lên: 11/08/2014, 12:21

... mandarin breeding Clementine is a natural hybrid between sweet orange and common mandarin selected in 1902 in Algeria All the cultivars of clementine have arisen from the initial 'Fina'clementine ... obtained from pollination with irradiated pollen a Small a Small seeds of 'Clemenules' obtained from pollination with irradiated pollen b Embryo present in seeds c Embryogenic calli originating from ... formed, we again determined the ploidy level Using this method, a diploid plant, arising from in vivo spontaneous somatic duplication of the chromosome number of the haploid line G was obtained and...

Ngày tải lên: 12/08/2014, 03:21

... combining conservation information from multiple sources will increase the accuracy of phylogenetic footprinting The following question then arises; which Genome Biology 2007, 8:R84 http://genomebiology.com/2007/8/5/R84 ... -500 Distance from start Genome Biology 2007, 8:R84 information Figure Upstream sequence conservation of protein coding versus miRNA genes Upstream sequence conservation of protein coding versus ... distances in which this issue may be addressed In this report we present our findings regarding promoter conservation of all protein coding genes and upstream sequence conservation of intergenic...

Ngày tải lên: 14/08/2014, 07:21

... PF11_0255† Involved in decapping Lsm2 PFE1020w Involved in decapping Lsm3 PF08_0049 Involved in decapping Lsm4 PF11_0524 Involved in decapping Lsm5 PF14_0411 Involved in decapping Lsm6 PF13_0142 Involved ... challenging However, Coulson and coworkers [6] found proteins with sequence similarity to RNA binding proteins, in particular the CCCH-type zinc finger proteins that are involved in regulating mRNA ... study, including ribosomal proteins, proteins involved in energy metabolism, and proteins involved in rRNA processing These authors also measured a general increase in mRNA stability during the...

Ngày tải lên: 14/08/2014, 07:22

... mapping experiment targeting a series of growth and carcass characteristics of economic importance in pig breeding, performed in a Piétrain × Large White intercross The Piétrain breed, originating ... DISCUSSION We herein report the results of a whole genome scan performed in a Piétrain × Large White intercross to map QTL in uencing growth and carcass traits The identification of an imprinted QTL with ... account for the missing genotypes of the parental generation, resulting in the fact that the parental origin of the F1 chromosomes could not be determined Using a typical “interval mapping” strategy,...

Ngày tải lên: 14/08/2014, 13:21

... reported in the different M lineages distributed in India, complete sequencing of M* and defined lineages suggests that these mt DNA genomes emerged from a limited number of branches arising from ... these lineages Results We have found seven group defining basal substitutions and described fourteen lineages in detail from complete mt DNA genome sequence information, which will help in further ... understanding migration routes of the diverse Indian people, more control region sequences are being generated without much support from coding region sites, resulting in an increasing number...

Ngày tải lên: 14/08/2014, 14:21

... production, in particular the avidin gene family [3] These genes encode egg-white proteins and have homologs in invertebrates, indicating that they have been lost in mammals, probably in association ... it comes from, each new genome sequence has a fascinating story to tell, and adds more detail to our knowledge of genome evolution and organization Genome Biology 2005, 6:207 http://genomebiology.com/2005/6/2/207 ... genomes Analysis of the chicken genome also highlights the importance of sequencing genomes that lie in key positions on the tree of life: complete sequences of genomes from across the vertebrates,...

Ngày tải lên: 14/08/2014, 14:21

... GC ENSG00000145321 17 P02774 Albumin Vitamin D-binding protein precursor PLEKHA4 ENSG00000105559 PS50003 PH_DOMAIN Pleckstrin homology domain-containing protein family A member-4 IGLC1, IGLC2, ... library obtained from the UCSC genome website [7] Alignments were performed using MEGABLAST using a word size of 12 For each peptide alignment, the encoding DNA sequence was obtained from the genome ... protein domains using UNIPROT and PROSITE [29,30] Protein domains overlapped by the novel peptide region were extracted from the database Theoretical proteins containing the novel OE peptide sequences...

Ngày tải lên: 14/08/2014, 16:21

... http://genomebiology.com/2008/9/7/R112 Genome Biology 2008, or, alternatively, by microarrays that interrogate the entire genomic sequence, so called 'whole genome tiling arrays' [1214] In contrast ... the nonrepetitive portion of the genome [15] This includes intergenic and intronic regions, and whole- genome tiling arrays can therefore measure transcription from annotated genes, identify new ... Seedlings 0.88 Expanding leaves 0.87 13 Senescing leaves 0.87 301 Stem 0.87 34 Vegetative shoot meristem 0.86 19 Inflorescence shoot meristem 0.87 14 Whole inflorescences 0.85 152 Whole inflorescences...

Ngày tải lên: 14/08/2014, 20:22