Distribution of the tandem repeat sequences and karyotyping in cucumber (Cucumis sativus L.) by fluorescence in situ hybridization.

Abstract:

:We analyzed repeat sequences composition in the genome of cucumber inbred line 9930 using whole-genome shotgun reads. The analysis showed that satellite DNA sequences are the most dominant components in the cucumber genome. The distribution pattern of several tandem repeat sequences (Type I/II, Type III and Type IV) on cucumber chromosomes was visualized using fluorescence in situ hybridization (FISH). The FISH signals of the Type III and 45S rDNA provide useful cytogenetic markers, whose position and fluorescence intensity allow for easy identification of all somatic metaphase chromosomes. A karyotype showing the position and fluorescence intensity of several tandem repeat sequences is constructed. The establishment of this FISH-based karyotype has created the basis for the integration of molecular, genetic and cytogenetic maps in Cucumis sativus and for the ultimate genome sequencing project as well.

journal_name

Cytogenet Genome Res

authors

Han YH,Zhang ZH,Liu JH,Lu JY,Huang SW,Jin WW

doi

10.1159/000151320

subject

Has Abstract

pub_date

2008-01-01 00:00:00

pages

80-8

issue

1

eissn

1424-8581

issn

1424-859X

pii

000151320

journal_volume

122

pub_type

杂志文章
  • The chicken RH map: current state of progress and microchromosome mapping.

    abstract::The ChickRH6 radiation hybrid panel has been used to construct consensus chromosome radiation hybrid (RH) maps of the chicken genome. Markers genotyped were either from throughout the genome or targeted to specific chromosomes and a large proportion (one third) of data was the result of collaborative efforts. Altogeth...

    journal_title:Cytogenetic and genome research

    pub_type: 杂志文章

    doi:10.1159/000103160

    authors: Morisson M,Denis M,Milan D,Klopp C,Leroux S,Bardes S,Pitel F,Vignoles F,Gérus M,Fillon V,Douaud M,Vignal A

    更新日期:2007-01-01 00:00:00

  • Genomic Deletion Involving the IMMP2L Gene in Two Cases of Autism Spectrum Disorder.

    abstract::Mutations/deletions of the IMMP2L gene have been associated with different cognitive/behavioral disturbances, including autism spectrum disorders (ASD). The penetrance of these defects is not complete since they often are inherited from a healthy parent. Using array-CGH in a cohort of 37 ASD patients, we found 2 subje...

    journal_title:Cytogenetic and genome research

    pub_type: 杂志文章

    doi:10.1159/000489001

    authors: Baldan F,Gnan C,Franzoni A,Ferino L,Allegri L,Passon N,Damante G

    更新日期:2018-01-01 00:00:00

  • Chromosomal organization of repetitive DNA in Sorubim lima (Teleostei; Pimelodidae).

    abstract::Interspaced repetitive DNA elements and segmental duplications have been extensively analyzed in fishes through physical chromosome mapping methods, providing a better comprehension of the structure and organization of the genome of this group. In order to contribute to this scenario, a sequence integration study of d...

    journal_title:Cytogenetic and genome research

    pub_type: 杂志文章

    doi:10.1159/000353845

    authors: Sczepanski TS,Vicari MR,de Almeida MC,Nogaroto V,Artoni RF

    更新日期:2013-01-01 00:00:00

  • Cytogenetic mapping in maize.

    abstract::Cytogenetic maps depict the location and order of markers along chromosomes. Cytogenetic maps are important in genome research as they relate the genetic data and molecular sequences to the morphological features of chromosomes. In this paper, we discuss various methods used in cytogenetic mapping in maize, with speci...

    journal_title:Cytogenetic and genome research

    pub_type: 杂志文章

    doi:10.1159/000082383

    authors: Wang CJ,Chen CC

    更新日期:2005-01-01 00:00:00

  • Equine genomics: galloping to new frontiers.

    abstract::Analysis of the horse genome is proceeding at a rapid pace. Within a short span of 6-7 years, approximately 1,500 markers have been mapped in horse, of which at least half are genes/ESTs. Health, performance and phenotypic characteristic are of major concern/interest to horse breeders and owners. Current efforts to an...

    journal_title:Cytogenetic and genome research

    pub_type: 杂志文章,评审

    doi:10.1159/000075746

    authors: Chowdhary BP,Bailey E

    更新日期:2003-01-01 00:00:00

  • Development of a linkage map and QTL scan for growth traits in North American bison.

    abstract::PCR protocols incorporating fluorescently labeled multiplexed primer combinations were developed to produce a linkage map for bison. Three hundred fifty eight microsatellite loci spanning all 29 autosomes were genotyped via 83 PCR multiplexes and nine individual amplifications. A total of 292 markers were integrated i...

    journal_title:Cytogenetic and genome research

    pub_type: 杂志文章

    doi:10.1159/000075726

    authors: Schnabel RD,Taylor JF,Derr JN

    更新日期:2003-01-01 00:00:00

  • Complete cDNA sequence, expression, alternative splicing, and genomic organization of the mouse Nfat5 gene.

    abstract::Members of the NFAT (nuclear factors of activated T cells) gene family have been investigated in numerous organisms, including man and mouse. All NFATs may be synthesized in several isoforms differing in amino or carboxy termini due to 5' and 3' alternative splicing of the corresponding mRNA. Recently, we mapped the m...

    journal_title:Cytogenetic and genome research

    pub_type: 杂志文章

    doi:10.1159/000066604

    authors: Dalski A,Hebinck A,Winking H,Butzmann U,Schwinger E,Zühlke Ch

    更新日期:2002-01-01 00:00:00

  • Sequence analysis of the equine SLC26A2 gene locus on chromosome 14q15-->q21.

    abstract::The solute carrier family 26, member 2 (SLC26A2) gene belongs to a family of multifunctional anion exchangers. Mutations in the human SLC26A2 gene are associated with autosomal recessively inherited chondrodysplasias. Hence, we postulate that the equine SLC26A2 could be a candidate gene for conformational traits in ho...

    journal_title:Cytogenetic and genome research

    pub_type: 杂志文章

    doi:10.1159/000106441

    authors: Hansen M,Knorr C,Hall AJ,Broad TE,Brenig B

    更新日期:2007-01-01 00:00:00

  • An easy protocol for studying chromatin and recombination protein dynamics during Arabidopsis thaliana meiosis: immunodetection of cohesins, histones and MLH1.

    abstract::Plant meiosis studies have enjoyed a fantastic boom in recent years with the use of Arabidopsis thaliana as a model not only for molecular genetics and genomics but also for cytogenetics. In this article we describe a new protocol for immunolabelling meiotic proteins that allows the detection of a large range of prote...

    journal_title:Cytogenetic and genome research

    pub_type: 杂志文章

    doi:10.1159/000314096

    authors: Chelysheva L,Grandont L,Vrielynck N,le Guin S,Mercier R,Grelon M

    更新日期:2010-07-01 00:00:00

  • The most common chromosome aberration detected by high-resolution comparative genomic hybridization in vulvar intraepithelial neoplasia is not seen in vulvar squamous cell carcinoma.

    abstract::We analyzed genetic changes in condylomas (four cases), vulvar intraepithelial neoplasia I-III (VIN I-III, eleven cases), and primary vulvar squamous cell carcinomas (VSCC, ten cases) by high-resolution comparative genomic hybridization (HR-CGH) and flowcytometry. All samples were also human papilloma virus (HPV)-geno...

    journal_title:Cytogenetic and genome research

    pub_type: 杂志文章

    doi:10.1159/000078559

    authors: Bryndorf T,Kirchhoff M,Larsen J,Andreasson B,Bjerregaard B,Westh H,Rose H,Lundsteen C

    更新日期:2004-01-01 00:00:00

  • Reverse transcriptase and integrase of the Saccharomyces cerevisiae Ty1 element.

    abstract::Integrase (IN) and reverse transcriptase (RT) play a central role in transposition of retroelements. The mechanism of integration by IN and the steps of the replication process mediated by RT are briefly described here. Recently, active recombinant forms of Ty1 IN and RT have been obtained. This has allowed a more det...

    journal_title:Cytogenetic and genome research

    pub_type: 杂志文章,评审

    doi:10.1159/000084960

    authors: Wilhelm FX,Wilhelm M,Gabriel A

    更新日期:2005-01-01 00:00:00

  • Barley chromosome arms longer than half of the spindle axis interfere with nuclear divisions.

    abstract::We have tested the influence of recombinantly-elongated chromosome arms on nuclear divisions in barley and confirmed a rule according to which half the length of the average spindle axis defines the upper tolerance limit for chromosome arm length. A slightly longer chromosome arm caused incomplete separation of sister...

    journal_title:Cytogenetic and genome research

    pub_type: 杂志文章

    doi:10.1159/000068530

    authors: Hudakova S,Künzel G,Endo TR,Schubert I

    更新日期:2002-01-01 00:00:00

  • A 3.4-kbp transcript of ZNF331 is solely expressed in follicular thyroid adenomas.

    abstract::Translocations involving chromosomal region 19q13 are a frequent finding in follicular adenomas of the thyroid and might represent the most frequent type of structural aberration in human epithelial tumors. By positional cloning, a putative candidate gene, ZNF331 (formerly RITA) located close to the breakpoint was ide...

    journal_title:Cytogenetic and genome research

    pub_type: 杂志文章

    doi:10.1159/000074165

    authors: Meiboom M,Murua Escobar H,Pentimalli F,Fusco A,Belge G,Bullerdiek J

    更新日期:2003-01-01 00:00:00

  • Physical mapping of 5S rDNA in two species of Knifefishes: Gymnotus pantanal and Gymnotus paraguensis (Gymnotiformes).

    abstract::Physical mapping of 5S rDNA in 2 species of knifefishes, Gymnotuspantanal and G. paraguensis (Gymnotiformes), was performed using fluorescence in situ hybridization with a 5S rDNA probe. The 5S rDNA PCR product from the genomes of both species was also sequenced and aligned to determine non-transcribed spacer sequence...

    journal_title:Cytogenetic and genome research

    pub_type: 杂志文章

    doi:10.1159/000328998

    authors: da Silva M,Matoso DA,Vicari MR,de Almeida MC,Margarido VP,Artoni RF

    更新日期:2011-01-01 00:00:00

  • Cytogenetic Insights into the Evolution of Chromosomes and Sex Determination Reveal Striking Homology of Turtle Sex Chromosomes to Amphibian Autosomes.

    abstract::Turtle karyotypes are highly conserved compared to other vertebrates; yet, variation in diploid number (2n = 26-68) reflects profound genomic reorganization, which correlates with evolutionary turnovers in sex determination. We evaluate the published literature and newly collected comparative cytogenetic data (G- and ...

    journal_title:Cytogenetic and genome research

    pub_type: 杂志文章

    doi:10.1159/000447478

    authors: Montiel EE,Badenhorst D,Lee LS,Literman R,Trifonov V,Valenzuela N

    更新日期:2016-01-01 00:00:00

  • Chromosomal Rearrangements during Turtle Evolution Altered the Synteny of Genes Involved in Vertebrate Sex Determination.

    abstract::Sex-determining mechanisms (SDMs) set an individual's sexual fate by its genotype (genotypic sex determination, GSD) or environmental factors like temperature (temperature- dependent sex determination, TSD), as in turtles where the GSD "trigger" remains unknown. SDMs co-evolve with turtle chromosome number, perhaps be...

    journal_title:Cytogenetic and genome research

    pub_type: 杂志文章

    doi:10.1159/000497302

    authors: Lee L,Montiel EE,Navarro-Domínguez BM,Valenzuela N

    更新日期:2019-01-01 00:00:00

  • Long dsRNA and silent genes strike back:RNAi in mouse oocytes and early embryos.

    abstract::RNA interference (RNAi) refers to the selective degradation of mRNA induced by double-stranded RNA (dsRNA), first discovered in Caenorhabditis elegans. Homology-dependent silencing phenomena related to RNAi have been observed in many species from all eukaryotic kingdoms. RNAi and related mechanisms share several conse...

    journal_title:Cytogenetic and genome research

    pub_type: 杂志文章,评审

    doi:10.1159/000078215

    authors: Svoboda P

    更新日期:2004-01-01 00:00:00

  • Meiotic recombination in normal and clone bulls and their offspring.

    abstract::Homologous chromosome pairing and recombination are essential components of meiosis and sexual reproduction. The reshuffling of genetic material through breakage and reunion of chromatids ensure proper segregation of homologous chromosomes in reduction division and genetic diversity in the progeny. The advent of somat...

    journal_title:Cytogenetic and genome research

    pub_type: 杂志文章

    doi:10.1159/000118745

    authors: Hart EJ,Pinton A,Powell A,Wall R,King WA

    更新日期:2008-01-01 00:00:00

  • Chromosome evolution in the lizard genus Gekko (Gekkonidae, Squamata, Reptilia) in the East Asian islands.

    abstract::The lizard genus Gekko consists of over 30 species distributed in Asia and Oceania. From the insular region of East Asia including Japan and Taiwan, 9 species (G. hokouensis, G. japonicus, G. shibatai, G. tawaensis, G. vertebralis,G. yakuensis, and 3 undescribed species) are currently recognized. We made karyological ...

    journal_title:Cytogenetic and genome research

    pub_type: 杂志文章

    doi:10.1159/000303334

    authors: Shibaike Y,Takahashi Y,Arikura I,Iiizumi R,Kitakawa S,Sakai M,Imaoka C,Shiro H,Tanaka H,Akakubo N,Nakano M,Watanabe M,Ohne K,Kubota S,Kohno S,Ota H

    更新日期:2009-01-01 00:00:00

  • The Persevering Cytotaxonomy: Discovery of a Unique XX/XY Sex Chromosome System in Catfishes Suggests the Existence of a New, Endemic and Rare Species.

    abstract::The genus Hypostomus has a broad geographic distribution in Brazilian rivers and comprises armored catfishes with a very complicated taxonomy due to the absence of morphological autapomorphies. The existence of nearly 10 allopatric populations with different karyotypes suggests that Hypostomusancistroides represents a...

    journal_title:Cytogenetic and genome research

    pub_type: 杂志文章

    doi:10.1159/000492959

    authors: Rocha-Reis DA,de Oliveira Brandão K,de Almeida-Toledo LF,Pazza R,Kavalco KF

    更新日期:2018-09-28 00:00:00

  • Interphase M-FISH applications using commercial probes in prenatal and PGD diagnostics.

    abstract::Early, rapid and reliable diagnosis is of first priority in prenatal medicine. The combination of specific sonographic markers (e.g. nuchal translucency) and biochemical parameters in maternal serum (e.g. free beta-human chorionic gonadotropin, pregnancy-associated plasma protein A), has already dramatically improved ...

    journal_title:Cytogenetic and genome research

    pub_type: 杂志文章

    doi:10.1159/000094217

    authors: Stumm M,Wegner RD,Bloechle M,Eckel H

    更新日期:2006-01-01 00:00:00

  • Imprinting control within the compact Gnas locus.

    abstract::Mouse distal chromosome 2 was one of the earliest described imprinting regions. Maternal and paternal inheritance of the region is associated with opposite phenotypes affecting growth, development and behaviour. Mis-expression of proteins determined by the imprinted Gnas locus can account for the phenotypes. The impri...

    journal_title:Cytogenetic and genome research

    pub_type: 杂志文章

    doi:10.1159/000090832

    authors: Peters J,Holmes R,Monk D,Beechey CV,Moore GE,Williamson CM

    更新日期:2006-01-01 00:00:00

  • Deletion of 4.4 Mb at 2q33.2q33.3 May Cause Growth Deficiency in a Patient with Mental Retardation, Facial Dysmorphic Features and Speech Delay.

    abstract::A patient with a rare interstitial deletion of chromosomal band 2q33.2q33.3 is described. The clinical features resembled the 2q33.1 microdeletion syndrome (Glass syndrome), including mental retardation, facial dysmorphism, high-arched narrow palate, growth deficiency, and speech delay. The chromosomal aberration was ...

    journal_title:Cytogenetic and genome research

    pub_type: 杂志文章

    doi:10.1159/000381568

    authors: Papoulidis I,Paspaliaris V,Papageorgiou E,Siomou E,Dagklis T,Sotiriou S,Thomaidis L,Manolakos E

    更新日期:2015-01-01 00:00:00

  • Misdivision of Telocentrics and Isochromosomes in Wheat.

    abstract::For normal transition through meiosis, chromosomes rely on pairing with their homologues. Chromosomes which fail to pair, univalents, behave irregularly and may undergo various types of breakage across their centromeres. Here, we analyzed the meiotic behavior of misdivision products themselves: isochromosomes and telo...

    journal_title:Cytogenetic and genome research

    pub_type: 杂志文章

    doi:10.1159/000497301

    authors: Kopecky D,Lukaszewski AJ

    更新日期:2019-01-01 00:00:00

  • Recurrent inversion events at 17q21.31 microdeletion locus are linked to the MAPT H2 haplotype.

    abstract::The chromosomal band 17q21.31, containing the microtubule-associated protein tau (MAPT) gene, is a hotspot for chromosomal rearrangements. It is known to contain a common inversion polymorphism of approximately 900 kb in populations with European ancestry. The inverted configuration is linked to a distinct MAPT haplot...

    journal_title:Cytogenetic and genome research

    pub_type: 杂志文章

    doi:10.1159/000315901

    authors: Rao PN,Li W,Vissers LE,Veltman JA,Ophoff RA

    更新日期:2010-01-01 00:00:00

  • A preliminary genetic map in Solea senegalensis (Pleuronectiformes, Soleidae) using BAC-FISH and next-generation sequencing.

    abstract::This article presents the first physical mapping carried out in the Senegalese sole (Solea senegalensis), an important marine fish species of Southern Europe. Eight probes were designated to pick up genes of interest in aquaculture (candidate genes) from a bacterial artificial chromosome (BAC) library using a method o...

    journal_title:Cytogenetic and genome research

    pub_type: 杂志文章

    doi:10.1159/000355001

    authors: García-Cegarra A,Merlo MA,Ponce M,Portela-Bens S,Cross I,Manchado M,Rebordinos L

    更新日期:2013-01-01 00:00:00

  • Genomic signatures of chromosomal instability and osteosarcoma progression detected by high resolution array CGH and interphase FISH.

    abstract::Osteosarcoma (OS) is characterized by an unstable karyotype which typically has a heterogeneous pattern of complex chromosomal abnormalities. High-resolution array comparative genomic hybridization (CGH) in combination with interphase fluorescence in situ hybridization (FISH) analyses provides a complete description o...

    journal_title:Cytogenetic and genome research

    pub_type: 杂志文章

    doi:10.1159/000151310

    authors: Selvarajah S,Yoshimoto M,Ludkovski O,Park PC,Bayani J,Thorner P,Maire G,Squire JA,Zielenska M

    更新日期:2008-01-01 00:00:00

  • Diversity and Karyotypic Evolution in the Genus Neacomys (Rodentia, Sigmodontinae).

    abstract::Neacomys (Sigmodontinae) comprises 8 species mainly found in the Amazonian region. We describe 5 new karyotypes from Brazilian Amazonia: 2 cytotypes for N. paracou (2n = 56/FNa = 62-66), 1 for N. dubosti (2n = 64/FNa = 68), and 2 for Neacomys sp. (2n = 58/FNa = 64-70), with differences in the 18S rDNA. Telomeric probe...

    journal_title:Cytogenetic and genome research

    pub_type: 杂志文章

    doi:10.1159/000441173

    authors: da Silva WO,Pieczarka JC,Rossi RV,Schneider H,Sampaio I,Miranda CL,da Silva CR,Cardoso EM,Nagamachi CY

    更新日期:2015-01-01 00:00:00

  • Cytogenetic Assessment of the Rat Cell Line CLS-ACI-1: An in vitro Cell Model for Mycn Overexpression.

    abstract::Breast cancer is a complex and heterogeneous disease, and the establishment of cell models in order to properly study the disease at the molecular and cellular level is of utmost importance. Here, we present the cytogenetic characterization and gene expression analysis of the tumoral mammary rat cell line CLS-ACI-1. T...

    journal_title:Cytogenetic and genome research

    pub_type: 杂志文章

    doi:10.1159/000441374

    authors: Meles S,Adega F,Castro J,Chaves R

    更新日期:2015-01-01 00:00:00

  • Mechanisms of the Evolutionary Chromosome Plasticity: Integrating the 'Centromere-from-Telomere' Hypothesis with Telomere Length Regulation.

    abstract::The 'centromere-from-telomere' hypothesis proposed by Villasante et al. [2007a] aims to explain the evolutionary origin of the eukaryotic chromosome. The hypothesis is based on the notion that the process of eukaryogenesis was initiated by adaptive responses of the symbiont eubacterium and its archaeal host to their n...

    journal_title:Cytogenetic and genome research

    pub_type: 杂志文章,评审

    doi:10.1159/000447415

    authors: Slijepcevic P

    更新日期:2016-01-01 00:00:00