We have contributed to the assembly process by mapping markers/genes to BACs and contigs using overgo hybridization. (kent.ac.uk)
Cytogenetic (FISH) evidence and the genome assembly itself place core MHC genes on as many as four chromosomes with TAP and Class I genes mapping to different chromosomes. (biomedcentral.com)
The difference appears to be purely methodological, as Kent and Zahler analyzed a subset of the data of Coghlan and Wolfe, and probably derives from a more relaxed definition of matching genes and use of cosmid fingerprinting physical map information by the latter study [ 6 ]. (biomedcentral.com)
Introgression of Bacterial Blight Resistance Genes in the Rice Cultivar Ciherang: Response against Xanthomonas oryzae pv. (mdpi.com)
Genome4
BAC fingerprint analyses and alignments of BACs to the pre-existing linkage map have generated a BAC contig physical map of the genome. (kent.ac.uk)
We describe the establishment and analysis of a genus-wide comparative framework composed of 12 bacterial artificial chromosome fingerprint and end-sequenced physical maps representing the 10 genome types of Oryza aligned to the O. sativa ssp. (biomedcentral.com)
Our strategy is to develop bacterial artificial chromosome (BAC)-end sequence (BES) physical frameworks of the ten genome types of Oryza and align them to the reference sequence. (biomedcentral.com)
The sequencing of the zebra finch Taeniopygia guttata genome, in combination with targeted bacterial artificial chromosome (BAC) sequencing, has allowed us to characterize an MHC from a highly divergent and diverse avian lineage, the passerines. (biomedcentral.com)
Mosaic1
Vertebrate chromosomes are mosaic structures containing large conserved segments that can reside in different linkage groups in different species. (biomedcentral.com)
Hybridization2
Overgo hybridization provides a cost-effective, high throughput method for integration of physical maps, sequences and linkage maps for many species, including other avians. (kent.ac.uk)
The probes have been used for molecular hybridizations (fluorescence in situ hybridization, or FISH) in clinical cytogenetics, Y chromosome mapping, sequencing, gene discovery, and comparative Y chromosome studies between the horse and other equids/ Perssodactyls. (veteriankey.com)
Rearrangements3
Estimation of rates of intrachromosomal to between-chromosome rearrangements showed that both were very frequent (approximately fourfold greater than that observed in D. melanogaster ). (biomedcentral.com)
This might be because rearrangements in the gene-poor Y chromosome have milder effect on the phenotype, as a result of which the affected individuals escape attention and are not subjected to cytogenetic analysis. (veteriankey.com)
The only true Y chromosome structural rearrangements, reported so far, are large-scale ECAY deletions in 64,XY sex reversal mares (Raudsepp et al. (veteriankey.com)
Libraries3
Both bacterial artificial chromosome (BAC) and small insert sequencing libraries have been constructed from DNA of a single female inbred Red Jungle Fowl, the nearest wild relative of domestic chickens. (kent.ac.uk)
Here we report the construction of 12 BAC/BES framework physical maps derived from these libraries and an analysis of the BESs in terms of transposable element, simple sequence repeat (SSR), microRNA (miRNA), and single nucleotide variation (SNV) content. (biomedcentral.com)
An important breakthrough in horse Y chromosome research came with the availability of new genomics tools and resources, such as large-insert genomic bacterial artificial chromosome (BAC) libraries (for review, see Rubes et al. (veteriankey.com)
Molecular1
The chicken genetic map is about 4000 cM, with 2000+ molecular markers mapped using three major reference families. (kent.ac.uk)
Genomic2
The newly identified structural variants will facilitate genetic improvement of tomato through both marker-assisted selection and genomic selection. (nature.com)
2009), chromosome flow sorting and microdissection technology, and various genomic DNA amplification systems (Telenius et al. (veteriankey.com)
Bias1
Comparisons between the genomes of the closely related nematodes Caenorhabditis elegans and Caenorhabditis briggsae reveal high rates of rearrangement, with a bias towards within-chromosome events. (biomedcentral.com)
Linkage1
We've assigned over 6000 BACs to over 600 markers across almost all chicken chromosomes and linkage groups. (kent.ac.uk)
Variation1
This polymorphism is primarily attributed to the various amount of Y heterochromatin, though earlier studies also suggest variation in the euchromatic portion of the chromosome (Power, 1988). (veteriankey.com)
Size1
The contig N 50 size of SL5.0 is 41.7 Mb, an increase of approximately sevenfold compared with the previous build SL4.0 (ref. 23 ). (nature.com)
High1
Heinz 1706, Build SL5.0) using high-fidelity (HiFi) long reads and high-throughput chromosome conformation capture (Hi-C) long-range scaffolding (Extended Data Fig. 2a ). (nature.com)
Portion1
The portion of chromosome material that remains condensed and is transcriptionally inactive during INTERPHASE. (lookformedical.com)
Regions1
Therefore, microdissected Y-chromosome probes are good for FISH but not suitable for cloning and sequencing of the male-specific or pseudoautosomal regions of the chromosome. (veteriankey.com)
Assembly1
Moreover, SL5.0 contains 19.3 Mb more sequences than SL4.0 (801.8 Mb versus 782.5 Mb), with 43 contigs (99.8% of the assembly) ordered and oriented on the 12 chromosomes (Fig. 1a and Extended Data Fig. 2b ). (nature.com)
Human1
Additionally, there are two reports about infertile stallions having XXY sex chromosomes - an equine counterpart to human Kleinfelter syndrome (Kubien et al. (veteriankey.com)
Selection1
Development of SNP Set for the Marker-Assisted Selection of Guar (Cyamopsis tetragonoloba (L.) Taub. (mdpi.com)
Clones12
Between ~3600 and 7500 physical map contigs were derived, depending on the software and probability thresholds used, and integrated with ~35 k sequenced BAC clones to develop a resource predicted to span the majority of the L. perenne genome. (aber.ac.uk)
This resource provides genome-wide resource of large-insert clones that will help integrate cytogenetic, radiation-hybrid, linkage, and sequence maps of the human genome. (nih.gov)
A cytogenetic resource of FISH-mapped, sequence-tagged clones (HBRC_1 set). (nih.gov)
Only clones that are localiized to one or two places on the same chromosome on the genome are included in this count This table was last updated on Mon Mar 13 16:12:26 EST 2006. (nih.gov)
This set consists of primarily bacterial artificial chromosome (BAC) clones. (nih.gov)
Clones selected on the basis of band location were used in FISH analysis to map the breakpoint of a translocation involving chromosomes 11 and 19 in a patient with multiple congenital malformations and mental retardation (DGAP012, http://dgap.harvard.edu). (nih.gov)
For physical mapping, each chromosome is broken up into larger or smaller pieces and isolated as DNA clones. (nih.gov)
Like a jigsaw puzzle, the larger clones are at first easier to put together into contigs than the smaller clones,' said Green. (nih.gov)
Two expressed sequence tag (EST) clones (IMAGE: 1734773 and 1533693) were sequenced to completion, yielding a 1,036 base pair (bp) cDNA contig. (biomedcentral.com)
A bacterial artificial chromosome (BAC) library comprising 26,016 BAC clones with an average 135 Kb insert size, was constructed from Trifolium pratense L. (red clover), a diploid legume with a haploid genome size of 440-637 Mb. (biomedcentral.com)
Six PPO genes clustered within the genome: four separate BAC clones could be assembled onto a predicted 190-510 Kb single BAC contig. (biomedcentral.com)
Genomic sequence1
Each clone has one or more sequence tags which can be used to anchor the clone onto the human genomic sequence map. (nih.gov)
Gene2
Combining the physical mapping resource with the GWAS has allowed us to extend the search for candidate genes across larger regions of the L. perenne genome and identified a number of interesting gene model annotations. (aber.ac.uk)
We report the discovery, characterization, and genomic context of a novel human NBC-like gene, SLC4A9 , on chromosome 5q31. (biomedcentral.com)
Clone3
Each clone has been mapped by Fluorescent In Situ Hybridization (FISH). (nih.gov)
Each clone is available as single-colony purified bacterial stock through one of three distributors. (nih.gov)
Presubmission contig h174.3 of bacterial artificial chromosome (EAC) clone CTC-329D1 (now GenBank AC008438) included four regions of high translated sequence similarity with known mammalian NBCs. (biomedcentral.com)
Traits2
Our aim was to identify genomic regions associated with agriculturally important traits by integrating a bacterial artificial chromosome (BAC)-based physical map with a genome-wide association study (GWAS). (aber.ac.uk)
Molecular markers for a range of important agricultural traits are being developed for red clover and improved knowledge of PPO genes and their structure will facilitate molecular breeding. (biomedcentral.com)
Region2
13 pQTLs were mapped 1 Mbp from the BADH2 region. (bvsalud.org)
Stage 2 of the HGP, Green continued, involves sequencing the organized DNA using what is termed a 'sequence-ready contig map,' or a series of overlapping BACs that map to a certain region of a human chromosome to construct each human chromosome page by page. (nih.gov)
Physical maps2
BAC-based physical maps for L. perenne were constructed from ~212 000 high-information-content fingerprints using Fingerprint Contig and Linear Topology Contig software. (aber.ac.uk)
These physical maps will aid in validating future sequence-based assemblies of the L. perenne genome. (aber.ac.uk)