The proximity of DNA sequences in interphase cell nuclei is correlated to genomic distance and permits ordering of cosmids spanning 250 kilobase pairs.

Abstract:

:The physical distance between DNA sequences in interphase nuclei was determined using eight cosmids containing fragments of the Chinese hamster genome that span 273 kb surrounding the dihydrofolate reductase (DHFR) gene. The distance between these sequences at the molecular level has been determined previously by restriction enzyme mapping (J.E. Looney and J.L. Hamlin, 1987, Mol. Cell Biol. 7: 569-577; C. Ma et al., 1988, Mol. Cell Biol. 8: 2316-2327). Fluorescence in situ hybridization was used to localize the DNA sequences in interphase nuclei of cells bearing only one copy of this genomic region. The distance between DNA sequences in interphase nuclei was correlated to molecular distance over a range of 25 to at least 250 kb. The observed relationship was such that genomic distance could be predicted to within 40 kb from interphase distance. The correct order of seven probes was derived from interphase distances measured for 19 pair-wise combinations of the probes. Measured distances between sequences approximately 200 kb apart indicate that the DNA is condensed 70- to 100-fold in hybridized nuclei relative to a linear DNA helix molecule. Cell lines with chromosome inversions were used to show that interphase distance increases with genomic distance in the 50-90 Mb range, but less steeply than in the 25-250 kb range.

journal_name

Genomics

journal_title

Genomics

authors

Trask B,Pinkel D,van den Engh G

doi

10.1016/0888-7543(89)90112-2

subject

Has Abstract

pub_date

1989-11-01 00:00:00

pages

710-7

issue

4

eissn

0888-7543

issn

1089-8646

journal_volume

5

pub_type

杂志文章

相关文献

GENOMICS文献大全
  • Comparative mapping in the beige-satin region of mouse chromosome 13.

    abstract::The proximal end of mouse chromosome (Chr) 13 contains regions conserved on human chromosomes 1q42-q44, 6p23-p21, and 7p22-p13. This region also contains mutations that may be models for human disease, including beige (human Chediak-Higashi syndrome). An interspecific backcross of SB/Le and Mus spretus mice was used t...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1006/geno.1996.4478

    authors: Perou CM,Perchellet A,Jago T,Pryor R,Kaplan J,Justice MJ

    更新日期:1997-01-15 00:00:00

  • Fibulin-2 (FBLN2): human cDNA sequence, mRNA expression, and mapping of the gene on human and mouse chromosomes.

    abstract::Fibulin-2 is a new extracellular matrix protein that we recently identified by characterizing mouse cDNA clones. Fibulin-2 mRNA is prominently expressed in mouse heart tissue and is present in low amounts in other tissues. In this study, we isolated and sequenced a 4.1-kb human fibulin-2 cDNA, which encoded a mature p...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1006/geno.1994.1404

    authors: Zhang RZ,Pan TC,Zhang ZY,Mattei MG,Timpl R,Chu ML

    更新日期:1994-07-15 00:00:00

  • A 9.1-kb gap in the genome reference map is shown to be a stable deletion/insertion polymorphism of ancestral origin.

    abstract::We show a mute 9.1-kb gap in the human genome reference map, unraveled by RDA studies, to be a worldwide deletion/insertion polymorphism of stable type. The molecular and population data presented suggest its origin from a unique ancestral transposition event in chromosomal region 22q11.2, overlapping the IglambdaV ge...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1006/geno.2002.7014

    authors: Robledo R,Orru S,Sidoti A,Muresu R,Esposito D,Grimaldi MC,Carcassi C,Rinaldi A,Bernini L,Contu L,Romani M,Roe B,Siniscalco M

    更新日期:2002-12-01 00:00:00

  • Molecular cloning and characterization of the mouse carboxyl ester lipase gene and evidence for expression in the lactating mammary gland.

    abstract::DNA hybridization was used to isolate a 2.04-kb cDNA encoding carboxyl ester lipase (CEL) from a mouse lactating mammary gland, lambda gt10 cDNA library. The cDNA sequence translated into a protein of 599 amino acids, including 20 amino acids of a putative signal peptide. Comparison of the deduced amino acid sequence ...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1006/geno.1995.1221

    authors: Lidmer AS,Kannius M,Lundberg L,Bjursell G,Nilsson J

    更新日期:1995-09-01 00:00:00

  • The human microbiome: a hot spot of microbial horizontal gene transfer.

    abstract::The human body harbors numerous microbes, and here exists a close relationship between microbes and human health. The Human Microbiome Project has generated whole genome sequences of several hundred human microbes. In this study, we identified horizontal gene transfer (HGT) events in human microbes and tried to elucid...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1016/j.ygeno.2012.07.012

    authors: Liu L,Chen X,Skogerbø G,Zhang P,Chen R,He S,Huang DW

    更新日期:2012-11-01 00:00:00

  • Molecular characterization of the gene for human cartilage gp-39 (CHI3L1), a member of the chitinase protein family and marker for late stages of macrophage differentiation.

    abstract::We have previously reported that the expression of HC gp-39, a 39-kDa secretory glycoprotein and member of the chitinase protein family, is associated with late stages of monocyte to macrophage maturation. To allow further investigations of its unique expression pattern and to facilitate studies on the regulation of t...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1006/geno.1997.4778

    authors: Rehli M,Krause SW,Andreesen R

    更新日期:1997-07-15 00:00:00

  • Construction and characterization of a bovine bacterial artificial chromosome library.

    abstract::A bacterial artificial chromosome (BAC) library has been constructed for use in bovine genome mapping using constructed for use in bovine genome mapping using the pBeloBAC11 vector. Currently, the library consists of 23,040 clones, which achieves a 70% probability (P=0.70) of the library containing a specific unique D...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1006/geno.1995.9986

    authors: Cai L,Taylor JF,Wing RA,Gallagher DS,Woo SS,Davis SK

    更新日期:1995-09-20 00:00:00

  • Structure, chromosomal locus, and promoter of mouse Hes2 gene, a homologue of Drosophila hairy and Enhancer of split.

    abstract::Hes2 encodes a mammalian basic helix-loop-helix transcriptional repressor homologous to the products of Drosophila hairy and Enhancer of split. Here, we isolated and characterized the mouse Hes2 gene. This gene consists of four exons, and all the introns are located within the protein-coding region at positions homolo...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1006/geno.1998.5213

    authors: Nishimura M,Isaka F,Ishibashi M,Tomita K,Tsuda H,Nakanishi S,Kageyama R

    更新日期:1998-04-01 00:00:00

  • Physiological analysis and transcriptome sequencing reveal the effects of drier air humidity stress on Pterocarya stenoptera.

    abstract::Identifying physiological and transcriptomic changes can provide insights into the effects of drier air humidity stress on plants. In this study, we selected 6-month-old seedlings of Pterocarya stenoptera as study materials and used physiological index detection and transcriptome sequencing to investigate the adaptati...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1016/j.ygeno.2020.09.027

    authors: Ye XF,Li Y,Liu HL,He YX

    更新日期:2020-11-01 00:00:00

  • A physical map at 1p31 encompassing the acute insulin response locus and the leptin receptor.

    abstract::Recently, we reported genetic linkage in Pima Indians between the acute insulin response to an intravenous glucose challenge and the short tandem repeat marker D1S198, indicative of a genetic element in this region that controls the phenotypic variation in the first phase of insulin secretion. As a first step to isola...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1006/geno.1996.4504

    authors: Thompson DB,Sutherland J,Apel W,Ossowski V

    更新日期:1997-01-15 00:00:00

  • Comparative transcriptome analysis of diploid and triploid hybrid groupers (Epinephelus coioides♀ × E. lanceolatus♂) reveals the mechanism of abnormal gonadal development in triploid hybrids.

    abstract::In our previous studies, diploid and triploid hybrids have been detected from the hybridization of Epinephelus coioides♀ × E. lanceolatus♂. The triploid groupers have been found to be delayed in gonadal development, but the mechanism remains poorly understood. In this study, we examined the gonadal development, assaye...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1016/j.ygeno.2018.11.010

    authors: Xiao L,Wang D,Guo Y,Tang Z,Liu Q,Li S,Zhang Y,Lin H

    更新日期:2019-05-01 00:00:00

  • Identification of non-coding and coding RNAs in porcine endometrium.

    abstract::One of the most critical periods of embryonic loss in pig is day 12 of pregnancy, when implantation begins. Here, we analyzed the gene expression on day 12 of pregnancy and non-pregnancy in the porcine endometrium using RNA sequencing (RNA-seq). 237 mRNAs, 34 lncRNAs and 1 miRNA were significantly differentially expre...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1016/j.ygeno.2016.11.007

    authors: Wang Y,Hu T,Wu L,Liu X,Xue S,Lei M

    更新日期:2017-01-01 00:00:00

  • Invertebrate tissue inhibitor of metalloproteinase: structure and nested gene organization within the synapsin locus is conserved from Drosophila to human.

    abstract::Vertebrate tissue inhibitors of metalloproteinases (TIMPs) regulate extracellular matrix metalloproteinases and are thus involved in a wide variety of developmental and physiological processes. By identifying cDNAs of a transcript detected within an intron of the Drosophila synapsin gene we have cloned the Drosophila ...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1006/geno.1999.5776

    authors: Pohar N,Godenschwege TA,Buchner E

    更新日期:1999-04-15 00:00:00

  • Human 4-hydroxyphenylpyruvate dioxygenase gene (HPD).

    abstract::Overlapping DNA fragments spanning approximately 21 kb of genomic DNA and encompassing the human 4-hydroxyphenylpyruvate dioxygenase gene (HPD) have been cloned by screening a human leukocyte genomic library and by PCR amplification of human fibroblastic DNA. A continuous gene sequence of 20,890 nucleotides was establ...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1006/geno.1997.4887

    authors: Rüetschi U,Rymo L,Lindstedt S

    更新日期:1997-09-15 00:00:00

  • Molecular cloning of two cannabinoid type 1-like receptor genes from the puffer fish Fugu rubripes.

    abstract::The puffer fish, Fugu rubripes (Fugu), has been proposed as a model vertebrate genome. We have characterized two putative G-protein-coupled receptor encoding genes, FCB1A and FCB1B, obtained by degenerate PCR and low-stringency hybridization of a Fugu genomic library. These two genes show high homology to the human ca...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1006/geno.1996.0406

    authors: Yamaguchi F,Macrae AD,Brenner S

    更新日期:1996-08-01 00:00:00

  • An explanation for the phenotypic differences between patients bearing partial deletions of the DMD locus.

    abstract::Deletions giving rise to Duchenne muscular dystrophy (DMD) and the less severe Becker muscular dystrophy (BMD) occur in the same large gene on the short arm of the human X chromosome. We present a molecular mechanism to explain the clinical difference in severity between DMD and BMD patients who bear partial deletions...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1016/0888-7543(88)90113-9

    authors: Monaco AP,Bertelson CJ,Liechti-Gallati S,Moser H,Kunkel LM

    更新日期:1988-01-01 00:00:00

  • Linkage of asthma to markers on chromosome 12 in a sample of 240 families using quantitative phenotype scores.

    abstract::We present evidence of linkage between markers on chromosome 12 and asthma using the BETA program for nonparametric single- and multipoint linkage analysis. We have used quantitative scores as our phenotypic variables, combining data into indices for asthma and atopy and maximizing heritability. The largest single-loc...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1006/geno.1998.5485

    authors: Wilkinson J,Grimley S,Collins A,Thomas NS,Holgate ST,Morton N

    更新日期:1998-11-01 00:00:00

  • Comparative analysis of neurological disorders focuses genome-wide search for autism genes.

    abstract::The behaviors of autism overlap with a diverse array of other neurological disorders, suggesting common molecular mechanisms. We conducted a large comparative analysis of the network of genes linked to autism with those of 432 other neurological diseases to circumscribe a multi-disorder subcomponent of autism. We leve...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1016/j.ygeno.2008.09.015

    authors: Wall DP,Esteban FJ,Deluca TF,Huyck M,Monaghan T,Velez de Mendizabal N,Goñí J,Kohane IS

    更新日期:2009-02-01 00:00:00

  • Ranking analysis of correlation coefficients in gene expressions.

    abstract::Development of statistical methods has become very necessary for large-scale correlation analysis in the current "omic" data. We propose ranking analysis of correlation coefficients (RAC) based on transforming correlation matrix into correlation vector and conducting a "locally ranking" strategy that significantly red...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1016/j.ygeno.2010.09.002

    authors: Tan YD

    更新日期:2011-01-01 00:00:00

  • Direct evidence for homologous sequences on the paracentric regions of human chromosome 1.

    abstract::Calcyclin is a member of the S100 family of proteins, many of which are encoded by genes that have been localized to the proximal long arm of human chromosome 1 (bands q21-q22). A 450-kb yeast artificial chromosome clone containing the human calcyclin gene was identified by PCR screening and used as a probe for fluore...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1006/geno.1994.1277

    authors: Hardas BD,Zhang J,Trent JM,Elder JT

    更新日期:1994-05-15 00:00:00

  • Molecular phenotype of the human oocyte by PCR-SAGE.

    abstract::Consecutive application of PCR and serial analysis of gene expression (SAGE) was used to generate a catalog of approximately 50, 000 SAGEtags from nine human oocytes. Matches for known genes were identified using the National Institutes of Health SAGEtag database. This database links directly to the UniGene database, ...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1006/geno.1999.6059

    authors: Neilson L,Andalibi A,Kang D,Coutifaris C,Strauss JF 3rd,Stanton JA,Green DP

    更新日期:2000-01-01 00:00:00

  • Inactive allele-specific methylation and chromatin structure of the imprinted gene U2af1-rs1 on mouse chromosome 11.

    abstract::The imprinted U2af1-rs1 gene that maps to mouse chromosome 11 is predominately expressed from the paternal allele. We examined the methylation of genomic sequences in and around the U2af1-rs1 locus to establish the extent of sequence modifications that accompanied the silencing of the maternal allele. The analysis of ...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1006/geno.1996.0348

    authors: Shibata H,Yoshino K,Sunahara S,Gondo Y,Katsuki M,Ueda T,Kamiya M,Muramatsu M,Murakami Y,Kalcheva I,Plass C,Chapman VM,Hayashizaki Y

    更新日期:1996-07-01 00:00:00

  • Refined mapping of the GM2 activator protein (GM2A) locus to 5q31.3-q33.1, distal to the spinal muscular atrophy locus.

    abstract::The GM2 activator locus (GM2A) had previously been considered as a candidate gene for some forms of spinal muscular atrophy (SMA; mapped to 5q11.2-q13.3). It was eliminated as a possible candidate because PCR-based mapping failed to localize the gene to chromosome 5, as was previously reported using an ELISA-based met...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1006/geno.1993.1491

    authors: Heng HH,Xie B,Shi XM,Tsui LC,Mahuran DJ

    更新日期:1993-11-01 00:00:00

  • Contiguous localization of the genes encoding human insulin-like growth factor binding proteins 1 (IGBP1) and 3 (IGBP3) on chromosome 7.

    abstract::In extracellular fluids the insulin-like growth factors (IGFs) are bound to specific binding proteins (IGBPs). The genes for two members of this protein family have been mapped, the IGBP1 gene to human chromosomal region 7p14-p12 and the IGBP2 gene to region 2q33-q34. In this study, somatic cell hybrid analysis indica...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1016/0888-7543(92)90440-4

    authors: Ehrenborg E,Larsson C,Stern I,Janson M,Powell DR,Luthman H

    更新日期:1992-03-01 00:00:00

  • RNA-sequencing reveals previously unannotated protein- and microRNA-coding genes expressed in aleurone cells of rice seeds.

    abstract::The rice genome annotation has been greatly improved in recent years, largely due to the availability of full length cDNA sequences derived from many tissues. Among those yet to be studied is the aleurone layer, which produces hydrolases for mobilization of seed storage reserves during seed germination and post germin...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1016/j.ygeno.2013.10.007

    authors: Watanabe KA,Ringler P,Gu L,Shen QJ

    更新日期:2014-01-01 00:00:00

  • Identification and characterization of long non-coding RNA in prenatal and postnatal skeletal muscle of sheep.

    abstract::lncRNAs are a class of transcriptional RNA molecules of >200 nucleotides in length. However, the overall expression pattern and function of lncRNAs in sheep muscle is not clear. Here, we identified 1566 lncRNAs and 404 differentially expressed lncRNAs in sheep muscle from prenatal (110 days of fetus) and postnatal (2 ...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1016/j.ygeno.2018.01.009

    authors: Li CY,Li X,Liu Z,Ni W,Zhang X,Hazi W,Ma Q,Zhang Y,Cao Y,Qi J,Yao Y,Feng L,Wang D,Hou X,Yu S,Liu L,Zhang M,Hu S

    更新日期:2019-03-01 00:00:00

  • Accelerated expansion of group IID-like phospholipase A2 genes in Bos taurus.

    abstract::Low-molecular-weight, calcium-dependent phospholipase A2 genes (PLA2s) that belong to the secreted type of PLA2s are clustered within a syntenic group on human 1p35-p36 and mouse 4qD3. We reassembled trace files available from the Whole Genome Sequencing (WGS) Project, obtaining an 86-kb contig with three tandem PLA2G...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1016/j.ygeno.2005.12.015

    authors: Golik M,Cohen-Zinder M,Loor JJ,Drackley JK,Band MR,Lewin HA,Weller JI,Ron M,Seroussi E

    更新日期:2006-04-01 00:00:00

  • HERV-K-T47D-Related long terminal repeats mediate polyadenylation of cellular transcripts.

    abstract::The human genome harbors thousands of long terminal repeats (LTRs) that are derived from endogenous retroviruses and contain elements able to regulate the expression of neighboring cellular genes. We have investigated the ability of human endogenous retroviral (HERV)-K LTRs to provide transcriptional processing signal...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1006/geno.2000.6175

    authors: Baust C,Seifarth W,Germaier H,Hehlmann R,Leib-Mösch C

    更新日期:2000-05-15 00:00:00

  • Identification of mesoderm development (mesd) candidate genes by comparative mapping and genome sequence analysis.

    abstract::The proximal albino deletions identify several functional regions on mouse Chromosome 7 critical for differentiation of mesoderm (mesd), development of the hypothalamus neuroendocrine lineage (nelg), and function of the liver (hsdr1). Using comparative mapping and genomic sequence analysis, we have identified four nov...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1006/geno.2000.6466

    authors: Wines ME,Lee L,Katari MS,Zhang L,DeRossi C,Shi Y,Perkins S,Feldman M,McCombie WR,Holdener BC

    更新日期:2001-02-15 00:00:00

  • Molecular characterization of Beckwith-Wiedemann syndrome (BWS) patients with partial duplication of chromosome 11p excludes the gene MYOD1 from the BWS region.

    abstract::The molecular characterization of two patients with features of Beckwith-Wiedemann syndrome (BWS) and chromosome abnormalities is consistent with the association of this phenotype with a duplication of a portion of chromosome 11. Quantitative Southern blot analysis of DNA from patient A defines a large inherited dupli...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1016/0888-7543(90)90256-t

    authors: Weksberg R,Glaves M,Teshima I,Waziri M,Patil S,Williams BR

    更新日期:1990-12-01 00:00:00