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| genomic librarySummarySummary: A form of GENE LIBRARY containing the complete DNA sequences present in the genome of a given organism. It contrasts with a cDNA library which contains only sequences utilized in protein coding (lacking introns). Top Publications
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Publications
SNP discovery and allele frequency estimation by deep sequencing of reduced representation librariesCurtis P van Tassell
Bovine Functional Genomics Laboratory, United States Department of Agriculture, Agricultural Research Service, 10300 Baltimore Avenue, Beltsville, Maryland 20705, USA
Nat Methods 5:247-52. 2008..67. This approach for simultaneous de novo discovery of high-quality SNPs and population characterization of allele frequencies may be applied to any species with at least a partially sequenced genome...
A linkage map for the B-genome of Arachis (Fabaceae) and its synteny to the A-genomeMarcio C Moretzsohn
EMBRAPA Recursos Geneticos e Biotecnologia, Brasilia, DF, Brazil
BMC Plant Biol 9:40. 2009..This can be overcome by the utilization of wild species of Arachis, which present the A- and B-genomes in the diploid state, and show high levels of genetic variability...
Conditionally amplifiable BACs: switching from single-copy to high-copy vectors and genomic clonesJadwiga Wild
McArdle Laboratory for Cancer Research, University of Wisconsin Medical School, Madison, Wisconsin 53706, USA
Genome Res 12:1434-44. 2002..2% D-glucose to the growth medium helped toward the objective of obtaining a real SC state for all BAC systems, thus enhancing the stability of their maintenance, which became equivalent to cloning into the host chromosome..
High-throughput bisulfite sequencing in mammalian genomesZachary D Smith
Department of Stem Cell and Regenerative Biology, Harvard University, Cambridge, MA 02138, USA
Methods 48:226-32. 2009..Contemporary sequencing and array-based technologies are compared against sample throughput and coverage, highlighting the variety of options available to investigate methylation on the genome-scale...
Dynamics of genomic-library enrichment and identification of solvent tolerance genes for Clostridium acetobutylicumJacob R Borden
Department of Chemical and Biological Engineering, Northwestern University, Evanston, IL 60208, USA
Appl Environ Microbiol 73:3061-8. 2007A Clostridium acetobutylicum ATCC 824 genomic library was constructed using randomly sheared DNA. Library inserts conferring increased tolerance to 1-butanol were isolated using two protocols...
Genome-wide RNAi screening in Caenorhabditis elegansRavi S Kamath
Wellcome Trust/Cancer Research UK Institute and Department of Genetics, University of Cambridge, Tennis Court Road, Cambridge CB2 1QR, UK
Methods 30:313-21. 2003..We have used this library to perform genome-wide analyses of gene function in C. elegans. Here, we describe the protocols used for bacterial library construction and for high-throughput screening in C. elegans using RNAi by feeding...
Finding a (pine) needle in a haystack: chloroplast genome sequence divergence in rare and widespread pinesJ B Whittall
Department of Biology, Santa Clara University, CA 95053, USA
Mol Ecol 19:100-14. 2010....
Identification of a new gene encoding EPSPs with high glyphosate resistance from the metagenomic libraryDan Jin
College of Life Sciences, Key Laboratory of Bio resources and Eco environment, The Ministry of Education, Sichuan University, 610064, Chengdu, China
Curr Microbiol 55:350-5. 2007..A His-tagged RD fusion protein was produced into E. coli to characterize the enzymatic properties of the RD EPSP protein...
Genomic library screens for genes involved in n-butanol tolerance in Escherichia coliLuis H Reyes
Department of Chemical Engineering, Texas A and M University, College Station, Texas, United States of America
PLoS ONE 6:e17678. 2011..However, the existing knowledge of genes involved in n-butanol tolerance is limited. The goal of this study is therefore to identify E. coli genes that are involved in n-butanol tolerance...
Development of SSR markers derived from SSR-enriched genomic library of eggplant (Solanum melongena L.)Tsukasa Nunome
National Institute of Vegetable and Tea Science NIVTS, National Agriculture and Food Research Organization NARO, 360 Kusawa, Ano, Tsu, Mie 514 2392, Japan
Theor Appl Genet 119:1143-53. 2009..The linkage map spans a total length of 959.1 cM, with an average marker distance of 4.3 cM. The markers should be a useful resource for qualitative and quantitative trait mapping and for marker-assisted selection in eggplant breeding...
Functional characterization of the gene cluster from Pseudomonas syringae pv. phaseolicola NPS3121 involved in synthesis of phaseolotoxinSelene Aguilera
CINVESTAV, IPN Unidad Irapuato, Departamento de Ingeniería Genética, Irapuato, Gto, Apdo Postal 629, CP 36500 Mexico
J Bacteriol 189:2834-43. 2007..Preliminary results also indicate that the gene product of phtL is involved in the regulation of the synthesis of phaseolotoxin...
Identification of two novel esterases from a marine metagenomic library derived from South China SeaXinmin Chu
Hefei National Laboratory for Physical Sciences at Microscale and School of Life Sciences, University of Science and Technology of China, Hefei, Anhui, 230027, China
Appl Microbiol Biotechnol 80:615-25. 2008..EstB displayed remarkable activity against p-nitrophenyl esters and was highly stable in 30% methanol, ethanol, dimethylformamide, and dimethyl sulfoxide, making EstB a potential candidate for industrial applications...
Monitoring genomic sequences during SELEX using high-throughput sequencing: neutral SELEXBob Zimmermann
Max F Perutz Laboratories, Department of Biochemistry, University of Vienna, Vienna, Austria
PLoS ONE 5:e9169. 2010..Concerns have been raised regarding requirements imposed on RNA sequences undergoing SELEX selection...
Genetic diversity of peanut (Arachis hypogaea L.) and its wild relatives based on the analysis of hypervariable regions of the genomeMarcio de Carvalho Moretzsohn
EMBRAPA Recursos Geneticos e Biotecnologia, C P 02372, 70 770 900, Brasilia DF, Brazil
BMC Plant Biol 4:11. 2004..Here we report the use of a set of microsatellite markers, including newly developed ones, for phylogenetic inferences and the analysis of genetic variation of accessions of A. hypogea and its wild relatives...
In vitro selection of RNA aptamers derived from a genomic human library against the TAR RNA element of HIV-1Marguerite Watrin
INSERM U869, European Institute of Chemistry and Biology, Pessac, France
Biochemistry 48:6278-84. 2009..The 5' ACCCAG loop of a1 constitutes a new motif of interaction with the TAR loop...
A genomic library-based amplification approach (GL-PCR) for the mapping of multiple IS6110 insertion sites and strain differentiation of Mycobacterium tuberculosisAmine Namouchi
Laboratory of Mycobacteria, Institut Pasteur de Tunis, 13, Place Pasteur, BP 74, 1002, Tunis-Belvedre, Tunisie, Tunisia
J Microbiol Methods 67:202-11. 2006..strategy, referred to as GL-PCR, that amplifies IS6110-flanking sequences based on the construction of a genomic library. M...
Efficient large-scale development of microsatellites for marker and mapping applications in Brassica crop speciesA J Lowe
IACR Long Ashton Research Station, Long Ashton, BS41 9AF, Bristol, UK
Theor Appl Genet 108:1103-12. 2004..napus mapping population. These 97 SSR markers were mapped relative to a framework of RFLP markers and detected 136 loci over all 19 linkage groups of the oilseed rape genome...
Metagenomic analysis of coastal RNA virus communitiesAlexander I Culley
Department of Botany, University of British Columbia, 3529-6270 University Boulevard, Vancouver, BC V6T 1Z4, Canada
Science 312:1795-8. 2006..Our results show that the oceans are a reservoir of previously unknown RNA viruses...
Identification of genes conferring arsenic resistance to Escherichia coli from an effluent treatment plant sludge metagenomic libraryNar Singh Chauhan
Microbial Genomics and Biotechnology Group, Institute of Genomics and Integrative Biology, Council of Scientific and Industrial Research CSIR, Delhi, India
FEMS Microbiol Ecol 67:130-9. 2009..ArsN alone resulted in an approximately sixfold higher resistance to sodium arsenate in wild-type Escherichia coli W3110...
A new beta-galactosidase with a low temperature optimum isolated from the Antarctic Arthrobacter sp. 20B: gene cloning, purification and characterizationAneta Monika Białkowska
Institute of Technical Biochemistry ITB, Technical University of Łódź, Stefanowskigo 4 10, 90 924 Łódź, Poland
Arch Microbiol 191:825-35. 2009....
Analysis of BAC end sequences in oak, a keystone forest tree species, providing insight into the composition of its genomePatricia Faivre Rampant
INRA, URGV, Plant Genomics Research, F 91057 Evry, France
BMC Genomics 12:292. 2011..Deep-coverage large-insert genomic libraries are a crucial tool for attaining this objective. We report herein the construction of a BAC library for Quercus robur, its characterization and an analysis of BAC end sequences...
High frequency and large number of polymorphic microsatellites in cultured shrimp, Penaeus (Litopenaeus) vannamei [Crustacea:Decapoda]Dawn Meehan
Environmental and Comparative Genomics Section, Department of Environmental and Population Health, Tufts University School of Veterinary Medicine, 200 Westboro Road, North Grafton, MA 01536, USA
Mar Biotechnol (NY) 5:311-30. 2003A total of 1479 recombinant clones were obtained from a Sau3A-digested genomic library of Penaeus (Litopenaeus) vannamei and used for probe hybridization...
Preliminary linkage map of the turkey (Meleagris gallopavo) based on microsatellite markersD W Burt
Department of Genomics and Bioinformatics, Roslin Institute Edinburgh, Roslin, Midlothian, UK
Anim Genet 34:399-409. 2003..turkey genetic linkage map we decided to map new microsatellite sequences obtained from a GT-enriched turkey genomic library. In different chicken populations more than 35-55% of microsatellites are polymorphic...
Identification of three wheat globulin genes by screening a Triticum aestivum BAC genomic library with cDNA from a diabetes-associated globulinEvelin Loit
Department of Biochemistry, Microbiology and Immunology, Faculty of Medicine, University of Ottawa, Ottawa, Canada
BMC Plant Biol 9:93. 2009..To investigate the genomic origin of the identified wheat protein cDNA, a hexaploid wheat genomic library from Glenlea cultivar was screened.
Isolation and sequence analysis of the wheat B genome subtelomeric DNAElena A Salina
Institute of Cytology and Genetics, Siberian Branch of the Russian Academy of Science, PR, Lavrentieva 10, Novosibirsk, 630090, Russia
BMC Genomics 10:414. 2009....
Utilization of a zebra finch BAC library to determine the structure of an avian androgen receptor genomic regionMeizhong Luo
Department of Plant Sciences, Arizona Genomics Institute, University of Arizona, Tucson, AZ 85721, USA
Genomics 87:181-90. 2006..Comparison of BAC end sequences and the whole BAC sequence with the chicken genome draft sequence showed a high degree of conserved synteny between the zebra finch and the chicken genome...
Assessing pooled BAC and whole genome shotgun strategies for assembly of complex genomesNiina Haiminen
IBM T J Watson Research Center, Yorktown Heights, NY 10598, USA
BMC Genomics 12:194. 2011..We propose additional measures enabling easy and visual comparison of assembly quality, such as rearrangements and redundant sequence content, relative to the known target sequence...
BAC library constructionKazutoyo Osoegawa
BACPAC Resource Center, Children's Hospital Oakland Research Institute, CA, USA
Methods Mol Biol 255:1-46. 2004
The Oryza bacterial artificial chromosome library resource: construction and analysis of 12 deep-coverage large-insert BAC libraries that represent the 10 genome types of the genus OryzaJetty S S Ammiraju
Arizona Genomics Institute, University of Arizona, Tucson, Arizona 85721 USA
Genome Res 16:140-7. 2006....
Metagenomic analyses of an uncultured viral community from human fecesMya Breitbart
Department of Biology, San Diego State University, San Diego, California 92182, USA
J Bacteriol 185:6220-3. 2003..Most of the sequences were unrelated to anything previously reported. The recognizable viruses were mostly siphophages, and the community contained an estimated 1,200 viral genotypes...
DNA repair in Drosophila: insights from the Drosophila genome sequenceJ J Sekelsky
Department of Biology, University of North Carolina, Chapel Hill, North Carolina 27599, USA
J Cell Biol 150:F31-6. 2000
Tall fescue genomic SSR markers: development and transferability across multiple grass speciesMalay C Saha
Forage Improvement Division, The Samuel Roberts Noble Foundation, Inc, 2510 Sam Noble Parkway, Ardmore, OK 73401, USA
Theor Appl Genet 113:1449-58. 2006..and other forage grass species. A tall fescue genomic library enriched in (GA/CT)( n ) repeats was used to develop primer pairs (PPs) flanking SSRs and assess PP ..
Isolation of a low-temperature adapted lipolytic enzyme from uncultivated micro-organismC Roh
School of Chemical and Biological Engineering, Institute of Molecular Biology and Genetics, Seoul National University, Seoul, South Korea
J Appl Microbiol 105:116-23. 2008..The aim of the study was to isolate a novel lipolytic enzyme from the activated sludge of uncultured micro-organisms...
Integration of Cot analysis, DNA cloning, and high-throughput sequencing facilitates genome characterization and gene discoveryDaniel G Peterson
Center for Applied Genetic Technologies and Department of Crop and Soil Sciences, University of Georgia, Athens, Georgia 30602, USA
Genome Res 12:795-807. 2002..High-throughput sequencing of Cot clones may be a means of "capturing" the sequence complexity of eukaryotic genomes at unprecedented efficiency...
Construction and characterization of three BAC libraries for analysis of the chicken genomeM-K Lee
Department of Soil and Crop Sciences, 2123 TAMUS, Texas A and M University, College Station, Texas 77843-2123, USA
Anim Genet 34:151-2. 2003
zA map for sequence analysis of the Arabidopsis thaliana genomeM Marra
Washington University Genome Sequencing Center, St Louis, Missouri 63108, USA
Nat Genet 22:265-70. 1999....
The first generation of a BAC-based physical map of Brassica rapaJeong Hwan Mun
Brassica Genomics Team, National Institute of Agricultural Biotechnology, Rural Development Administration, 225 Seodun dong, Gwonseon gu, Suwon 441 707, South Korea
BMC Genomics 9:280. 2008..Integration of a physical map with an existing genetic map by linking genetic markers and BAC clones in the sequencing pipeline provides a crucial resource for the ongoing genome sequencing effort and assembly of whole genome sequences...
New softwares for automated microsatellite marker developmentWellington Martins
Department of Computer Science, , Brazil
Nucleic Acids Res 34:e31. 2006..The software is freely available and simple to install in both Windows and Unix-based operating systems. Here we demonstrate the software by developing primer pairs for 427 new candidate markers for peanut...
Complete genome of the mutualistic, N2-fixing grass endophyte Azoarcus sp. strain BH72Andrea Krause
Laboratory of General Microbiology, University of Bremen, PO Box 330440, D-28334 Bremen, Germany
Nat Biotechnol 24:1385-91. 2006..The genome contains remarkably few mobile elements, indicating a low rate of recent gene transfer that is presumably due to adaptation to a stable, low-stress microenvironment...
Development of microsatellite markers from an enriched genomic library for genetic analysis of melon (Cucumis melo L.)Patricia Silva Ritschel
Cellular Biology Department, IB University of Brasília UnB Campus Universitário, Asa Norte, CEP 70 910 900, Brasilia, DF, Brazil
BMC Plant Biol 4:9. 2004..Genomic microsatellite enriched libraries can be an efficient alternative for marker development in such species...
Environmental genomics of "Haloquadratum walsbyi" in a saltern crystallizer indicates a large pool of accessory genes in an otherwise coherent speciesBoris A Legault
Evolutionary Genomics Group, Division de Microbiologia, Universidad Miguel Hernandez, Apartado 18, San Juan 03550, Alicante, Spain
BMC Genomics 7:171. 2006..Similar studies carried out in other extreme environments have revealed very little diversity in gene content among the cell lineages present...
Biomedical applications and studies of molecular evolution: a proposal for a primate genomic library resourceEvan E Eichler
Department of Genetics, Case Western Reserve University School of Medicine and University Hospitals of Cleveland, Cleveland, Ohio 44106, USA
Genome Res 12:673-8. 2002..Based on existing BAC library resources, we propose the construction of a panel of primate BAC libraries from phylogenetic anchor species for the purpose of comparative medicine as well as studies of genome evolution...
Interactions of Escherichia coli RNA with bacteriophage MS2 coat protein: genomic SELEXT Shtatland
Department of Molecular, University of Colorado, Boulder, CO 80309 0347, USA
Nucleic Acids Res 28:E93. 2000..Such methods may be useful tools for both randomized sequence SELEX and genomic SELEX...
Rice genome organization: the centromere and genome interactionsNori Kurata
Plant Genetics Laboratory, Genetic Strains Research Center, National Institute of Genetics, 1111 Yata, Mishima, Shizuoka 411 8540, Japan
Ann Bot 90:427-35. 2002..A genome-wide survey of interactive genetic loci has identified various reproductive barriers that may drive speciation of the rice genome. The significance of these findings in genome organization and evolution is discussed...
Boudicca, a retrovirus-like long terminal repeat retrotransposon from the genome of the human blood fluke Schistosoma mansoniClaudia S Copeland
Department of Tropical Medicine, School of Public Health and Tropical Medicine, Tulane University Health Sciences Center, New Orleans, Louisiana 70112, USA
J Virol 77:6153-66. 2003..By reverse transcription-PCR, mRNA transcripts were detected in the sporocyst, cercaria, and adult developmental stages of S. mansoni, indicating that Boudicca is actively transcribed in this trematode...
Development of a genomic library of near isogenic lines (NILs) in melon (Cucumis melo L.) from the exotic accession PI161375Iban Eduardo
, , Carretera de Cabrils s/n, 08348 Cabrils, Barcelona, Spain
Theor Appl Genet 112:139-48. 2005..The NILs can also be used as pre-competitive breeding lines in melon breeding projects...
Metagenomic profiling: microarray analysis of an environmental genomic libraryJonathan L Sebat
Environmental Research Institute, University of Idaho, Moscow, Idaho 83844-1052, USA
Appl Environ Microbiol 69:4927-34. 2003..Metagenomic profiling offers an effective approach for rapidly characterizing many clones and identifying the clones corresponding to unidentified species of microorganisms...
A highly redundant BAC library of Atlantic salmon (Salmo salar): an important tool for salmon projectsJim Thorsen
Department of Basic Sciences and Aquatic Medicine, Section of Genetics, Norwegian School of Veterinary Science, P O Box 8146 Dep, N 0033 Oslo, Norway
BMC Genomics 6:50. 2005..Furthermore, large-scale mapping can utilize highly redundant libraries in genome projects, and hence provide valuable data on the genome structure...
E-RNAi: a web application to design optimized RNAi constructsZeynep Arziman
Boveri-Group Signaling and Functional Genomics, German Cancer Research Center, Im Neuenheimer Feld 580, D-69120 Heidelberg, Germany
Nucleic Acids Res 33:W582-8. 2005..We here describe a web-based tool to evaluate and design optimized dsRNA constructs. Moreover, the application also gives access to published predesigned dsRNAs. The E-RNAi web application is available at http://e-rnai.dkfz.de/...
Multicopy suppressors for novel antibacterial compounds reveal targets and drug efflux susceptibilityXiaoming Li
Department of Biochemistry, Antimicrobial Research Centre, McMaster University, 1200 Main Street West, Hamilton, Ontario L8N 3Z5, Canada
Chem Biol 11:1423-30. 2004..been exploited to select for genetic interactions between a particular mutant and clones from a random genomic library at high copy...
Construction of a subgenomic BAC library specific for chromosomes 1D, 4D and 6D of hexaploid wheatJaroslav Janda
Laboratory of Molecular Cytogenetics and Cytometry, Institute of Experimental Botany, , 77200 Olomouc, Czech Republic
Theor Appl Genet 109:1337-45. 2004..Their availability should facilitate the analysis of wheat genome structure and evolution, development of cytogenetic maps, construction of local physical maps and map-based cloning of agronomically important genes...
Isolation and biochemical characterization of two novel metagenome-derived esterasesC Elend
Molekulare Enzymtechnologie, , Lotharstrasse 1, 47057 Duisburg, Germany
Appl Environ Microbiol 72:3637-45. 2006..The high level of stability of these enzymes together with their unique substrate specificities make them highly useful for biotechnological applications...
Utility of different gene enrichment approaches toward identifying and sequencing the maize gene spaceNathan Michael Springer
Center for Plant and Microbial Genomics, Department of Plant Biology, University of Minnesota, St Paul, Minnesota 55108, USA
Plant Physiol 136:3023-33. 2004..Analysis of the overlap of coverage and bias due to position within a gene suggest that RescueMu, methyl-filtration, and high-Cot methods are at least partially nonredundant...
Lateral gene transfer and phylogenetic assignment of environmental fosmid clonesCamilla L Nesbø
Department of Biochemistry and Molecular Biology, Dalhousie University and Genome Atlantic, 5850 College Street, Halifax, Nova Scotia, Canada, B3H1X5
Environ Microbiol 7:2011-26. 2005..In several cases, we can infer co-transfer of functionally related genes, and generate hypotheses about mechanism and ecological significance of transfer...
Genome-wide mapping of DNase hypersensitive sites using massively parallel signature sequencing (MPSS)Gregory E Crawford
National Human Genome Research Institute, National Institutes of Health, Bethesda, Maryland 20892, USA
Genome Res 16:123-31. 2006..This strategy, which can be applied to any cell line or tissue, will enable a better understanding of how chromatin structure dictates cell function and fate...
From raw materials to validated system: the construction of a genomic library and microarray to interpret systemic perturbations in Northern bobwhiteArun Rawat
Department of Biological Sciences, University of Southern Mississippi, Hattiesburg, MS, USA
Physiol Genomics 42:219-35. 2010..Furthermore, the systemic impact of dinitrotoluenes on liver function appears conserved across species as PPAR signaling is similarly affected in fathead minnow liver tissue after exposure to 2,4-DNT...
Structural characterization of SIL, a gene frequently disrupted in T-cell acute lymphoblastic leukemiaP D Aplan
Naval Medical Branch, National Cancer Institute, Bethesda, Maryland 20889 5105
Mol Cell Biol 11:5462-9. 1991..The genomic structure of SIL was also analyzed. The gene consists of 18 exons distributed over 70 kb, with the 5' portion of the gene demonstrating alternate exon utilization...
Identification of immunogenic polypeptides from a Mycoplasma hyopneumoniae genome library by phage displayJonas Kügler
Abteilung Biotechnologie, Institut für Biochemie und Biotechnologie, Technische Universitat Braunschweig, Braunschweig, Germany
Appl Microbiol Biotechnol 80:447-58. 2008..The fragmented genome of M. hyopneumoniae was cloned into a phage display vector, and the genomic library was packaged using the helperphage Hyperphage to enrich open reading frames (ORFs)...
Bacterial artificial chromosome libraries for mouse sequencing and functional analysisK Osoegawa
Department of Cancer Genetics, Roswell Park Cancer Institute, Buffalo, New York 14263 USA
Genome Res 10:116-28. 2000..The low rate of chimerism, approximately 1%, and the low level of detected rearrangements support the anticipated usefulness of the BAC libraries for genome research...
Construction and characterization of a BAC library for the European sea bass Dicentrarchus labraxH A Whitaker
Institute of Aquaculture, University of Stirling, Stirling FK9 4LA, UK
Anim Genet 37:526. 2006
A BAC-based physical map of the Drosophila buzzatii genomeJosefa González
Departament de Genetica i de Microbiologia, Universitat Autonoma de Barcelona, 08193 Bellaterra Barcelona, Spain
Genome Res 15:885-92. 2005..We constructed a Bacterial Artificial Chromosome (BAC) genomic library of D. buzzatii using the shuttle vector pTARBAC2.1...
Broad host range vectors for stable genomic library constructionMichael D Lynch
Department of Chemical and Biological Engineering, UCB424/ECCH120, University of Colorado, Boulder, 80309, USA
Biotechnol Bioeng 94:151-8. 2006We describe the construction of 36 stable vectors for genomic library construction in gram-negative species. These vectors contain the pBBR1 replicon that has been shown to stably replicate in every gram-negative species tested...
Rainbow smelt (Osmerus mordax) genomic library and EST resourcesK R von Schalburg
Centre for Biomedical Research, University of Victoria, Victoria, BC V8W 3N5, Canada
Mar Biotechnol (NY) 10:487-91. 2008..They also facilitate identification of genes important to fish and direct us toward new technologies for other studies in fish biology...
Characterization of a forest soil metagenome clone that confers indirubin and indigo production on Escherichia coliHe Kyoung Lim
Division of Applied Biology, College of Natural Resources and Life Science, Dong A University, Busan 604 714, Republic of Korea
Appl Environ Microbiol 71:7768-77. 2005..This finding suggests that these forest soil microbial genes are responsible for producing the pigment with antibacterial activity...
Toward closing rice telomere gaps: mapping and sequence characterization of rice subtelomere regionsTae-Jin Yang
Brassica Genomics Team, National Institute of Agricultural Biotechnology, RDA, Suwon, 441-707, Korea
Theor Appl Genet 111:467-78. 2005....
Molecular structure of a novel gypsy-Ty3-like retrotransposon (Kabuki) and nested retrotransposable elements on the W chromosome of the silkworm Bombyx moriH Abe
Department of Biological Production, Faculty of Agriculture, Tokyo University of Agriculture and Technology, Japan
Mol Gen Genet 263:916-24. 2000..Moreover, the Kabuki element is largely intact. These results suggest that many retrotransposable elements have accumulated on the W chromosome, and these elements are expected to evolve more slowly than those on other chromosomes...
FSY1, a novel gene encoding a specific fructose/H(+) symporter in the type strain of Saccharomyces carlsbergensisP Goncalves
Centro de Recursos Microbiológicos, Biotechnology Unit, Faculty of Sciences and Technology, New University of Lisbon, 2825 114 Caparica, Portugal
J Bacteriol 182:5628-30. 2000..Fsy1p is only distantly related to the Hxt proteins that mediate facilitated diffusion of glucose and fructose in Saccharomyces cerevisiae and related species...
A census of rRNA genes and linked genomic sequences within a soil metagenomic libraryMark R Liles
Department of Plant Pathology. Gaylord Nelson Institute of Environmental Studies, University of Wisconsin-Madison, 1630 Linden Drive, Madison, WI 53706, USA
Appl Environ Microbiol 69:2684-91. 2003..This study is the first step in using genomics to reveal the physiology of as-yet-uncultured members of the Acidobacterium division...
High-Cot sequence analysis of the maize genomeYinan Yuan
Department of Biological Sciences, Purdue University, West Lafayette, Indiana 47907-1392, USA
Plant J 34:249-55. 2003....
Parallel construction of orthologous sequence-ready clone contig maps in multiple speciesJames W Thomas
Genome Technology Branch, National Human Genome Research Institute, National Institutes of Health, Bethesda, Maryland 20892, USA
Genome Res 12:1277-85. 2002..The described approach can be used to facilitate the multispecies comparative sequencing of targeted genomic regions and can be adapted for constructing BAC contig maps in other vertebrates...
Identification and characterisation of a melon genomic region containing a resistance gene cluster from a constructed BAC library. Microcolinearity between Cucumis melo and Arabidopsis thalianaHans van Leeuwen
, Institut de Biologia Molecular de Barcelona, CID-CSIC, Jordi Girona 18, 08034, Barcelona, Spain
Plant Mol Biol 51:703-18. 2003..The detailed analysis of this region provides a description of the gene structure and the presence of repetitive sequences in a defined fragment of the genome of Cucumis melo...
Preparation of genome-wide DNA fragment libraries using bisulfite in polyacrylamide gel electrophoresis slices with formamide denaturation and quality control for massively parallel sequencing by oligonucleotide ligation and detectionSwati S Ranade
Applied Biosystems, Foster City, CA 94404, USA
Anal Biochem 390:126-35. 2009....
Microsatellite identification and characterization in peanut ( A. hypogaea L.)M E Ferguson
International Crops Research Institute for the Semi Arid Tropics ICRISAT, 502324, Patancheru, Andhra Pradesh, India
Theor Appl Genet 108:1064-70. 2004....
High density of long dinucleotide microsatellites in Drosophila subobscuraM Pascual
Department of Molecular Biology and Genetics, Cornell University, New York, NY, USA
Mol Biol Evol 17:1259-67. 2000..subobscura compared with D. melanogaster are due to both a higher average effective population and a higher intrinsic slippage rate in the former species...
Gene cloning, expression and characterization of novel phytase from Obesumbacterium proteusNickolay V Zinin
State Research Institute of Genetics and Selection of Industrial Microorganisms, 1 st Dorozhnii proezd 1, Moscow 117545, Russian Federation
FEMS Microbiol Lett 236:283-90. 2004The gene phyA encoding phytase was isolated from Obesumbacterium proteus genomic library and sequenced. The cleavage site of the PhyA signal peptide was predicted and experimentally proved...
Structural analysis of a Lotus japonicus genome. V. Sequence features and mapping of sixty-four TAC clones which cover the 6.4 mb regions of the genomeTomohiko Kato
Kazusa DNA Research Institute, 2-6-7 Kazusa-kamatari, Kisarazu, Chiba 292-0818, Japan
DNA Res 10:277-85. 2003..japonicus, MG-20 and Gifu B-129. The sequence data, gene information and mapping information are available through the World Wide Web at http://www.kazusa.or.jp/lotus/...
Bacterial artificial chromosome library of Finegoldia magna ATCC 29328 for genetic mapping and comparative genomicsTakatsugu Goto
Department of Microbiology, Wakayama Medical University, Kimiidera, Wakayama, Japan
Microbiol Immunol 47:1005-16. 2003..The BAC library constructed here will be useful for the whole genome sequencing project and other postgenomic applications...
Molecular cloning and genomic analysis of mouse GalNAc alpha2, 6-sialyltransferase (ST6GalNAc I)N Kurosawa
Molecular Glycobiology, Frontier Research Program, The Institute of Physical and Chemical Research RIKEN, Wako, Saitama 351 0198, Japan
J Biochem 127:845-54. 2000..The mouse ST6GalNAc I gene was also cloned from a mouse genomic library, which was divided into 9 exons spanning over 8 kilobases of genomic DNA...
Identification and characterization of Lactobacillus helveticus PepO2, an endopeptidase with post-proline specificityYo-Shen Chen
Department of Food Science, University of Wisconsin-Madison, Madison, Wisconsin 53706, USA
Appl Environ Microbiol 69:1276-82. 2003A post-proline endopeptidase (PepO2) was detected in cell extracts from a genomic library of Lactobacillus helveticus CNRZ32 by using the synthetic substrate N-acetyl-beta-casein-(f203-209)-rho-nitroanilide in a coupled reaction with ..
The human gene encoding tryptophanyl-tRNA synthetase: interferon-response elements and exon-intron organizationL Y Frolova
Engelhardt Institute of Molecular Biology, Russian Academy of Sciences, Moscow
Gene 128:237-45. 1993..abstract truncated at 250 words)..
[Cloning and structural analysis of mouse genomic nucleophosmin gene]You Gui Xiang
Lab of Medical and Molecular Genetics, Department of Medical Genetics, Shanghai Second Medical University, Shanghai 200025, China
Yi Chuan Xue Bao 32:641-9. 2005..To generate NPM gene knockout mice and study its biological function in vivo, we screened the lambda phage genomic library derived from 129S1 mice with mouse NPM cDNA probe...
Characterization of a unique genomic clone located 5' upstream of the Oshsp16.9B gene on chromosome 1 in rice (Oryza sativa L. cv Tainung No. 67)J-C Guan
Department of Botany, National Taiwan University, 106 Taipei, Taiwan, R. O. C
Theor Appl Genet 106:503-11. 2003..A 1.6-kb DNA fragment was isolated from the EcoRI-digested rice genomic library probed with the cDNA pTS1 encoding a 16.9-kDa class-I sHSP...
Deductions about the number, organization, and evolution of genes in the tomato genome based on analysis of a large expressed sequence tag collection and selective genomic sequencingRutger Van Der Hoeven
Department of Plant Breeding, Cornell University, Ithaca, New York 14850, USA
Plant Cell 14:1441-56. 2002....
Structural characterization and transcriptional regulation of the gene encoding diapause hormone and pheromone biosynthesis activating neuropeptide in the cotton bollworm, Helicoverpa armigeraTian-Yi Zhang
Department of Molecular and Cell Biology, School of Life Sciences, University of Science and Technology of China, Hefei 230027, China
Biochim Biophys Acta 1728:44-52. 2005..Our results uncover common and different regulatory mechanisms at work in the control of DH-PBAN gene expression in H. armigera and B. mori...
Cloning, genomic organisation and mRNA expression of a pectin lyase gene from a mutant strain of Penicillium occitanisHèla Trigui Lahiani
Laboratoire de Genetique Moleculaire des Eucaryotes, Centre de Biotechnologie de Sfax, BP K 3038 Sfax, Tunisia
Gene 388:54-60. 2007..This result suggests that the corresponding regulatory trans-acting factor should be the same as in Aspergillus...
PCR-based approach to SINE isolation: simple and complex SINEsOlga R Borodulina
Laboratory of Eukaryotic Genome Evolution, Engelhardt Institute of Molecular Biology, Russian Academy of Sciences, Moscow 119991, Russia
Gene 349:197-205. 2005..Interestingly, three SINE families of this group are alanine tRNA-derived. Most probably, this tRNA gave rise to short and simple but successful SINEs several times during mammalian evolution...
Cloning and characterization of a bacterial cell-bound type B carboxylesterase from Bacillus sp. BP-7N Prim
Department of Microbiology, Faculty of Biology, University of Barcelona, Av Diagonal 645, 08028 Barcelona, Spain
Curr Microbiol 42:237-40. 2001A clone producing halos on tributyrin plates was isolated from a genomic library of Bacillus sp. BP-7. The insert contained an open reading frame that coded for a protein of 487 amino acids with homology to carboxylesterases...
Cloning and characterization of glucokinase from a methylotrophic yeast Hansenula polymorpha: different effects on glucose repression in H. polymorpha and Saccharomyces cerevisiaeSilja Laht
Institute of Molecular and Cell Biology, University of Tartu, Riia 23, Estonia
Gene 296:195-203. 2002..polymorpha double kinase-negative mutant A31-10 by a genomic library. An open reading frame of 1416 nt encoding a 471-amino-acid protein with calculated molecular weight 51...
Schizosaccharomyces pombe gad7+ encodes a phosphoprotein with a bZIP domain, which is required for proper G1 arrest and gene expression under nitrogen starvationJ Kanoh
Department of Biophysics and Biochemistry, School of Science, University of Tokyo, Hongo, Japan
Genes Cells 1:391-408. 1996..Fission yeast cells arrest at G1 phase when starved of nitrogen. The molecular mechanism that ensures this arrest is poorly understood. We took a genetic approach to this problem...
Structural analysis of the eukaryotic initiation factor 4E gene controlling potyvirus resistance in pepper: exploitation of a BAC librarySandrine Ruffel
INRA, Plant Genomics Research Unit, 2 rue G. Cremieux, CP 5708, F-91057 Evry Cedex, France
Gene 338:209-16. 2004..Several potential binding sites for MADS box transcription factors within the 5' flanking region of eIF4E genes from the three plant species were also predicted...
Cloning and characterization of a gene encoding an immunosuppressive factor from Actinobacillus actinomycetemcomitansH Ikenoya
Department of Microbiology, Oral Health Science Center, Tokyo Dental College, 1-2-2 Masago, Mihama-ku, Chiba 261-8502, Japan
Bull Tokyo Dent Coll 42:65-71. 2001..The immunosuppressive factor was screened from a genomic library of A. actinomycetemcomitans using an oligonucleotide probe based on the amino acid sequence of the factor...
Human mitochondrial HMG CoA synthase: liver cDNA and partial genomic cloning, chromosome mapping to 1p12-p13, and possible role in vertebrate evolutionY Boukaftane
Service de Genetique Medicale, Hopital Sainte Justine, Montreal, Quebec, Canada
Genomics 23:552-9. 1994....
Cloning and nucleotide sequencing of a 15 kb region of the Bacillus subtilis genome containing the iol operonK Yoshida
Department of Biotechnology, Faculty of Engineering, Fukuyama University, Japan
Microbiology 140:2289-98. 1994..Based on the features of the nucleotide sequence determined and the results of the homology search, the primary structure of the iol operon is predicted...
Primary structure and functional expression of a Drosophila cyclic nucleotide-gated channel present in eyes and antennaeA Baumann
Institut für Biologische Informationsverarbeitung, Forschungszentrum Julich, Germany
EMBO J 13:5040-50. 1994..The channel mRNA is expressed in antennae and the visual system of Drosophila. It is proposed that CNG channels are involved in transduction cascades of both invertebrate photoreceptors and olfactory sensillae...
Gene structure and cell type-specific expression of the human ATP synthase alpha subunitS Akiyama
Department of Biochemistry, Jichi Medical School, Tochigi ken, Japan
Biochim Biophys Acta 1219:129-40. 1994..The enhancer activities derived from the 5'-deletion mutants of a hATP1-CAT chimeric gene were different in cell lines from four different human tissues, suggesting the existence of cell type-specific gene regulation...
Analysis and toxic overexpression in Escherichia coli of a staphylococcal gene encoding isoleucyl-tRNA synthetaseA F Chalker
Department of Biotechnology, SmithKline Beecham Pharmaceuticals, Brockham Park, Surrey, UK
Gene 141:103-8. 1994..The gene was engineered for high-level expression in Escherichia coli. Ile-RS overproduction was toxic to the E. coli host, the magnitude of its observed effects being strain-dependent...
Cloning and sequencing of the genes from Salmonella typhimurium encoding a new bacterial ribonucleotide reductaseA Jordan
Department of Genetics and Microbiology, Faculty of Sciences, Autonomous University of Barcelona, Bellatera, Spain
J Bacteriol 176:3420-7. 1994..Analysis of the nrdEF and proU sequences demonstrates that transcription of the nrdEF genes is in the clockwise direction on the S. typhimurium and E. coli maps...
Cloning and characterization of the SEC18 gene from Candida albicansA Nieto
, , Burjassot, Valencia, Spain
Yeast 9:875-87. 1993..cerevisiae thermosensitive mutant using a C. albicans genomic library in YRp7...
Isolation and DNA sequence of the STE14 gene encoding farnesyl cysteine: carboxyl methyltransferaseM N Ashby
Department of Molecular and Cell Biology, University of California, Berkeley 94720
Yeast 9:907-13. 1993..In comparisons of the C-terminal methyltransferase amino acid sequence with those in the PIR and Swiss protein databases, no significantly similar sequences were found nor were conserved regions from other methyltransferases present...
Sporulation and primary sigma factor homologous genes in Clostridium acetobutylicumU Sauer
Institut fur Mikrobiologie, Georg August Universitat Gottingen, Germany
J Bacteriol 176:6572-82. 1994..The data presented here provide strong evidence that at least some of the complex regulation features of sporulation in B. subtilis are conserved in C. acetobutylicum and possibly Clostridium spp...
Organization of the gene encoding the human endothelin-converting enzyme (ECE-1)O Valdenaire
F Hoffmann La Roche Ltd, Pharma Division, Basel, Switzerland
J Biol Chem 270:29794-8. 1995....
Research Grants
- CHEMICAL PATHOLOGY OF NEUROLOGICAL DISORDERSKunihiko Suzuki; Fiscal Year: 1999..Standard methodologies include cDNA and genomic library construction, screening, the polymerase chain reaction, sequencing, allele-specific oligonucleotide screening,..
- CHEMICAL PATHOLOGY OF NEUROLOGICAL DISORDERSKunihiko Suzuki; Fiscal Year: 1993..Standard methodologies include cDNA and genomic library construction, screening, the polymerase chain reaction, sequencing, allele-specific oligonucleotide screening,..
- TREPONEMA PALLIDUM PATHOGENESIS ASSOCIATED MOLECULESSheila Lukehart; Fiscal Year: 2001..and homology with known virulence factors, and full-length genes for each ORF will be obtained from a genomic library or by PCR amplification of the ORF using primer sequences from the T...
- HUMAN GRANULOCYTIC EHRLICHIAJOHN DUMLER; Fiscal Year: 1999..Genes encoding immunodominant, surface-exposed proteins of HGE will be cloned from a genomic library and sequenced. The sequences will be compared with homologs in E. equi and other ehrlichiae. 3...
- NUCLEAR ENCODED GENES REGULATE CHLOROPLAST TRANSLATIONAmybeth Cohen; Fiscal Year: 2002..We have produced antisera against these proteins, and have isolated two of the genomic clones: a screen of a genomic library should allow isolation of the third clone...
- B FORSYTHUS PROTEASE AND SIALIDASE--GENES AND SUBSTRATESMARK MAIDEN; Fiscal Year: 2003..The experimental design will be to first isolate clones of the two genes by screening a B. forsythus genomic library (Specific Aims 1 and 3). The cloned genes will be sequences and expressed in E. coli...
- GENETIC DETERMINANTS OF OXYGEN TOXICITYValeria Culotta; Fiscal Year: 1993..to meet these goals are as follows: (AIM 1) To clone the BSD2 gene: This gene will be isolated from a yeast genomic library through functional complementation...
- MANNOPROTEIN BIOSYNTHESIS IN SACCHAROMYCES CEREVISIAEAnnette Herscovics; Fiscal Year: 1991..amino acid sequencing in order to clone the gene encoding this processing enzyme by screening a lambda gt11 genomic library with the antibodies and with synthetic oligonucleotides...
- FUNCTIONAL ANALYSIS OF THE MYXOCOCCUS XANTHUS GENOMEPhilip Youderian; Fiscal Year: 2004..More important, these P22+insert particles are powerful genetic elements that allow us to order a genomic library of M. xanthus inserts by the functional approach of complementation of Salmonella auxotrophies...
- CELLULAR MECHANISMS IN THE INDUCTION OF AROMATASECAROLE MENDELSON; Fiscal Year: 1991..The cDNAs will be used to screen a human genomic library for isolation of the P-450AROM gene, which will be characterized and partially sequenced...
