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Results for “Chromosome segmentation”

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PubMed1972

Abnormal excision and transfer of chromosomal segments by a strain of Escherichia coli K-12.

PB15 is an Hfr strain of Escherichia coli K-12. It arose from an F' strain carrying a temperature-sensitive F-gal by an event which blocked the detachment of F-gal in the normally reversible integration process. In PB15, the detachment of F-gal by a second mechanism can now be detected: this mechanism results in the excision and transfer of extended chromosomal segments which include the integrated F-gal; the excised segments are inferred to have circularized. Their excision, which is independent of the recA(+) allele, occurs at an unusually high rate during conjugation; a mutant F-initiator protein is suggested as the cause of this phenomenon. After their establishment in recipients, the enlarged F-genotes undergo further deletions of included donor genes by a process which is again recA(+)-independent. In Rec(+), but not in Rec(-), cells, a high proportion of the deleted fragments are rescued by integration into the recipient's chromosome.

Acridines↗

PubMed2024

Putative evolution of Myxococcus fulvus 124B02 plasmid pMF1 from a chromosomal segment in another Myxococcus species.

Myxobacteria or order Myxococcales (old nomenclature) or phylum Myxococcota (new terminology) are fascinating organisms well known for their diverse peculiar physiological, taxonomic, and genomic properties. Researchers have long sought to identify plasmids within these organisms, yet thus far, only two organisms from different families have been found to harbor a plasmid. This study delves into the putative evolution of one of these plasmids, i.e., pMF1 present in Myxococcus fulvus 124B02 in the suborder Cystobacterineae and family Myxococcaceae. Here, we first reannotated the pMF1 plasmid genome sequence and identified two additional open reading frames or putative genes which were not annotated until now. We further reported that all pMF1 plasmid genes depict homology with Myxococcus stipitatus CYD1 draft genome (contig 28) and a chromosomal segment of M. stipitatus DSM14675 in a syntenic manner, implying the presence of plasmid-like structure in M. stipitatus CYD1, integrated into its chromosome. To comprehend the relationship among these three species, we conducted phylogenetic analyses using 16S and concatenated housekeeping genes and genome-to-genome distance calculator (GGDC) analysis, which confirmed that M. stipitatus CYD1 is a distinct and novel species within the genus Myxococcus. Overall, this comparative genomic study sheds light on the putative emergence of the pMF1 plasmid from a common ancestor of closely related yet distinct species, M. stipitatus CYD1, possibly through the partition from its chromosome as a segment.IMPORTANCEMyxobacteria are not well known to have plasmids. Until now, only two organisms have been shown to have plasmids, raising a pertinent question about how these plasmids evolved randomly within the phylum Myxococcota. The study presented in this manuscript delves into the emergence of the pMF1 plasmid found in Myxococcus fulvus 124B02, a member of the suborder Cystobacterineae and family Myxococcaceae. Our research addresses this intriguing topic of plasmid identification and evolution within myxobacteria, which are a group of fascinating organisms that have garnered significant interest due to their diverse physiological, taxonomic, and genomic properties.

Plasmids↗

PubMed2003

Search for linkage between hand osteoarthritis and 11q 12-13 chromosomal segment.

OBJECTIVE: The aims of the present study were: (1) to evaluate the extent and mode of inheritance of hand osteoarthritis by using a large sample of ethnically homogeneous pedigrees of Caucasian origin; (2) to examine whether the synthetic measure of osteoarthritis according to Kellgren and Lawrence (K-L) and the more specific measure, namely, the extent of osteophytes development, have a similar putative genetic determination and pattern of biological inheritance and (3) to test the hypothesis that hand osteoarthritis dependent phenotypes are linked to the 11q 12-13 chromosomal region. METHODS: The population of the present study comprised 1190 Chuvashians (Russian Federation) belonging to 295 nuclear families. Segregation analysis was carried out on a total sample. Sub-sample of 571 individuals was used to conduct Transmission/disequilibrium test (TDT) and model-based linkage analysis. RESULTS: Adjusted for age, sex and other covariates, both OA phenotypes showed significant familial aggregation. The model fitting analysis strongly supported the hypothesis of a major gene effect on study traits. The inferred major gene explained about 52% of the osteophyte score (OPS) and 49% of the K-L score variation adjusted for confounding variables. The series of model-based linkage analyses and TDTs provided inconclusive evidence on possible linkage of both phenotypes to the 11q 12-13 chromosomal region. CONCLUSIONS: We support the hypothesis of a major gene effect in heritability of hand osteoarthritis in both phenotypes. Despite the fact that some DNA markers showed statistically significant association to studied primary phenotypes, we find only weak evidence of linkage disequilibrium between hand osteoarthritis and the proximal part of the 11q 12-13 chromosomal segment (D11S1983 for K-L score and D11S1313 for OPS). The subject, however, a merit requires further investigation.

Adolescent↗

PubMed1988

Absence of a lateral rectus muscle associated with duplication of the chromosome segment 7q32----q34.

Absence of the right lateral rectus muscle and hypoplasia of the left was found in a child with congenital esotropia. He had mental and physical retardation, bilateral optic nerve hypoplasia, and many minor dysmorphic features, including brachycephaly, high forehead, poorly folded, low set ears, epicanthic folds, exaggerated Cupid's bow, long philtrum, and single palmar creases. Unusual features were a markedly ridged palate and a plantar crease which passed from the first and second interspace across the lateral border of the foot. He was found to have an unbalanced karyotype with duplication of chromosome segment 7q32----q34 (46,XY,der(2),inv?ins(2;7) (q21;q32q34)mat). The mother, maternal aunt, and sister of the proband all had a balanced rearrangement and were phenotypically normal.

Abnormalities, Multiple↗

PubMed1978

Correlations between chromosome segments and fitness in Drosophila melanogaster III. Differential genetic responses to zinc sulfate and selenocystine.

Genetic X environmental interactions are examined at an intrachromosomal level in Drosophila melanogaster. With respect to two fitness components, egg production and egg-to-adult viability, evidence is provided that different segments of the X chromosome are affected differently by each of the chemical substances, zinc sulfate and selenocystine. The extent of a segment's effect on a trait is not always parallelled by the extent of its association with that trait's sensitivity to chemical treatment. Both attributes are functions of the genetical background. The degree of dominance of each segment is not always greater in the chemical environments, a finding inconsistent with Parson's concept of "extreme-environment heterosis".

Animals↗

PubMed2002

Transfer of rye chromosome segments to wheat by a gametocidal system.

A gametocidal chromosome derived from Aegilops triuncialis (3C) induces chromosome mutations in gametes lacking the 3C chromosome in common wheat (Triticum aestivum L.). We combined 3C with chromosome 1R of rye (Secale cereale L.) in a common wheat line to know how efficiently 3C induces transfers of small 1R segments to wheat. In the 811 progeny of this wheat line, we found five wheat chromosomes (2A, 2D, 3D, 5D and 7D) carrying segments of the 1R satellite. Wheat plants carrying these translocations were tested for the presence of a storage protein locus Sec-1 and a cluster of resistance genes for wheat rust diseases, Sr31, Lr26 and Yr9. The 2A and 2D translocations had the Sec-1 and three rust resistance loci. The 3D and 5D translocations had Sr31, Lr26 and Yr9 but not Sec-1. The 7D translocation lacked Sec-1, Lr26 and Yr9, but the presence of Sr31 in this translocation was not determined. This showed that the translocation points fell into three regions of the 1R satellite, namely, proximal to Sec-1, between Sec-1 and the rust resistance loci, and distal to the rust resistance loci. Thus, the 3C gametocidal system was demonstrated to be effective in transferring small rye chromosome segments.

Chromosomes↗

PubMed2005

Conservation genomics: disequilibrium mapping of domestic cattle chromosomal segments in North American bison populations.

Introgressive hybridization is one of the major threats to species conservation, and is often induced by human influence on the natural habitat of wildlife species. The ability to accurately identify introgression is critical to understanding its importance in evolution and effective conservation management of species. Hybridization between North American bison (Bison bison) and domestic cattle (Bos taurus) as a result of human activities has been recorded for over 100 years, and domestic cattle mitochondrial DNA was previously detected in bison populations. In this study, linked microsatellite markers were used to identify domestic cattle chromosomal segments in 14 genomic regions from 14 bison populations. Cattle nuclear introgression was identified in five populations, with an average frequency per population ranging from 0.56% to 1.80%. This study represents the first use of linked molecular markers to examine introgression between mammalian species and the first demonstration of domestic cattle nuclear introgression in bison. To date, six public bison populations have been identified with no evidence of mitochondrial or nuclear domestic cattle introgression, providing information critical to the future management of bison genetic resources. The ability to identify even low levels of introgression resulting from historic hybridization events suggests that the use of linked molecular markers to identify introgression is a significant development in the study of introgressive hybridization across a broad range of taxa.

Animals↗

PubMed1988

Coexistence of an MHC chromosomal segment marked by HLA B17,BfS,C4A6,B1,DR7, and DQw9 in different ethnic groups.

Previously we have shown that the supratype HLA B17 BfS C4A6 B1 DR7 (17 6 1 7) carrying a C4/Bgl II RFLP correlating with C4A6 coexists in whites and Thai/Chinese. Using conventional and PFGE/Southern blotting with class II, class III, and TNF probes as well as serologic DQ subtyping, we have extended these comparisons and now report that four examples each of white and Oriental 17 6 1 7 bear DQw9, as well as an approximately 10kb fragment hybridizing with a DR beta probe following digestion of genomic DNA with Hind III. Furthermore, Oriental and white 17 6 1 7 share a genomic insertion of some 70kb close to the class II region. These data suggest that 17 6 1 7 may mark a highly conserved chromosomal segment which provides new insights into the biology and evolution of the major histocompatibility complex.

Asian People↗

PubMed1989

Localization in man of fifteen DNA sequences within the chromosome segment 13q12-q22.

Fifteen human chromosome 13 specific DNA fragments, isolated from a lambda phage genomic library, were localized within the segment 13q12-q22. One was mapped to 13q12.1-q12.2, three to 13q12.3-q13.1, one to 13q14,1-q14.2, five to 13q14.1-q21.1, one to 13q21.1-q21.2, two to 13q21.2, and one to 13q22.1, and one to 13q22. The localization was performed by hybridization to Southern blots of a panel of human cell lines with overlapping deletions in 13q, and for three probes also by in situ hybridization to metaphase chromosomes.

Cell Line↗

PubMed1988

Further studies on chromosome 15 trisomy in murine T-cell lymphomas: mapping of the relevant chromosome segment.

Trisomy 15 is the most common chromosomal aberration in murine T-cell lymphomas. The relevant chromosomal region responsible for the growth advantage of the 15-trisomic cell has not been defined. In order to map this region, we have induced thymic lymphomas by chemical carcinogens (DMBA or MNU) in mice with 2 different constitutional translocations, T(7;15)9H homozygotes and [T(7;15)9H X T(5;15)4Ad] FI hybrids. Twenty-two tumors developed in 90 carcinogen-treated mice. Among the 14 cytogenetically analyzed thymic lymphomas, 4 were diploid and 5 were aneuploid, with no chromosome-15-associated changes. Five lymphomas showed partial duplication of chromosome 15. Four of them have duplicated the segment distal to the C/DI breakpoint of T9H, while the 5th carried an interstitial duplication of the D2 sub-band of the T(7;15) translocation chromosome. These findings suggest that the duplication of the D 2/3 region, known to contain the c-myc and the pvt-I genes (Banerjee et al., 1985), rather than other regions of chromosome 15, contributes to the development and/or progression of murine T-cell leukemias.

9,10-Dimethyl-1,2-benzanthracene↗

PubMed1983

Cytologic evidence for three human X-chromosomal segments escaping inactivation.

Early replication of prometaphasic human sex chromosomes was studied with the bromodeoxyuridine (BrdU)-replication technique. The studies reveal that two distal segments of Xp, including bands Xp 22.13 and Xp 22.3, replicate early in S-phase and therefore may not be subject to random inactivation. Furthermore, the replication of these distal segments of Xp occurs synchronously with those of the short arm of the Y chromosome including bands Yp 11.2 and Yp 11.32. These segments of Xp and Yp correspond well to the pairing segment of the X and Y chromosomes where a synaptonemal complex forms at early pachytene of human spermatogenesis. The homologous early replication of Yp and the distal portion of Xp may be interpreted as a remnant left untouched by the differentiation of heteromorphic sex chromosomes from originally homomorphic autosomes. A third early replicating segment is situated on the long arm of the X chromosome and corresponds to band Xq 13.1. This segment may be correlated with the X-inactivation center postulated by Therman et al. (1979).

Bromodeoxyuridine↗

PubMed1996

Evidence for a megareplicon covering megabases of centromeric chromosome segments.

We have analysed the replication of the heterochromatic megachromosome that was formed de novo by a large-scale amplification process initiated in the centromeric region of mouse chromosome 7. The megachromosome is organized into amplicons approximately 30 Mb in size, and each amplicon consists of two large inverted repeats delimited by a primary replication initiation site. Our results suggest that these segments represent a higher order replication unit (megareplicon) of the centromeric region of mouse chromosomes. Analysis of the replication of the megareplicons indicates that the pericentric heterochromatin and the centromere of mouse chromosomes begin to replicate early, and that their replication continues through approximately three-quarters of the S-phase. We suggest that a replication-directed mechanism may account for the initiation of large-scale amplification in the centromeric regions of mouse chromosomes, and may also explain the formation of new, stable chromosome segments and chromosomes.

Animals↗

PubMed1969

The DNA base composition of individual chromosomes and chromosome segments from Chironomus tentans.

The base composition of DNA was determined for individual chromosomes from the dipteran Chironomus tentans and for each one of six different segments of one of the chromosomes. The isolations were carried out by micromanipulation and the DNA purines were first extracted from the isolated components and afterwards separated by means of microelectrophoresis on a cellulose fiber. It was found that DNA from this material has an unusual composition corresponding to a guanine + cytosine content of about 30%. This composition was not a function of the polytenic condition but was also found for DNA from testis tissue. Furthermore Drosophila has a more traditional base composition for the bulk of DNA. Statistically significant variations in base data were found between whole chromosomes as well as between the segments from one of the chromosomes.

Adenine↗

PubMed2001

Mouse chromosome 19 and distal rat chromosome 1: a chromosome segment conserved in evolution.

Through a combination of radiation hybrid mapping and studies by FISH and zoo-FISH we have made a comparative investigation of the distal portion of rat chromosome 1 (RNO1) and the entire mouse chromosome 19 (MMU19). It was found that homologous segments of RNO1 and MMU19 are similar in banding morphology and in length as determined by several different methods, and that the gene order of the 46 genes studied appears to be conserved across the homologous segments in the two species. High-resolution zoo-FISH techniques showed that MMU19 probes highlight only a continuous segment on RNO1 (1q43-qter), with no detectable signals on other rat chromosomes. We conclude that these data suggest the evolutionary conservation of a chromosomal segment from a common rodent ancestor. This segment now constitutes the entire MMU19 and a large segment distally on RNO1q in the mouse and rat, respectively.

Animals↗

PubMed1983

Mg2+-dependent compactness of heterochromatic chromosome segments.

The stability of heterochromatic blocks in pachytene chromosomes of Tenebrio molitor (Insecta, Coleoptera) was analysed at the chromosomal level using a modified Miller spreading technique. Incubation of nuclei in solutions of different ionic strength and composition revealed that the characteristic compactness of heterochromatic segments was preserved in the presence of at least 0.6 mM MgCl2. The compactness of these segments was lost in solutions of different ionic strength and composition revealed that the characteristic compactness of heterochromatic segments was preserved in the presence of at least 0.6 mM MgCl2. The compactness of these segments was lost in solutions containing NaCl (0.1-100 mM), but no MgCl2. They then resembled the euchromatic segments. The decondensed heterochromatic segments could be recompacted by adding MgCl2 to a final concentration of 1.0 mM. The characteristic compactness of heterochromatin of pachytene chromosomes therefore depends on the presence of Mg2+, but is independent of Na+.

Animals↗

PubMed2001

Between rat and mouse zoo-FISH reveals 49 chromosomal segments that have been conserved in evolution.

Mouse single chromosome paints were applied to rat prophase/prometaphase chromosomes to detect homologous chromosome regions. The analysis revealed 49 rat chromosomal regions ranging in size from whole chromosomes down to small bands near the limit of detection with this method, which was estimated to be 2-3 Mb. When all the painted regions were taken into account, the whole rat genome was covered with mouse-homologous regions, with the exception of small segments near the centromeres and the short arms of Chromosomes (Chrs) 3, 11, 12, and 13. These regions were shown to contain high levels of rat-specific repetitive DNA. The number of conserved segments between rat and mouse detected by our high-resolution zoo-FISH method was significantly higher than that reported in previous studies.

Animals↗

PubMed2003

Preferential reduction of dicentrics in reciprocal exchanges due to the combination of the size of broken chromosome segments by radiation.

Induction rates of the dicentrics and translocations involving chromosomes 2 and 4 in peripheral lymphocytes irradiated with X-rays at a dose of 3 Gy were examined using a conventional Giemsa staining method and a chromosome painting method. In total, 228 reciprocal exchanges detected in 982 metaphases were classified into three groups according to the break points of the original chromosomes. The incidence of both acentric fragments being larger than half of the original chromosome (combination 1) was only seven (3%) and did not contribute significantly to induction rates. When the broken acentric fragments of two affected chromosomes were smaller than half of the original chromosomes (combination 2), which was found in 175 (77%) rearrangements, the induction rates of dicentrics and translocations were about the same (86:89). But if the sizes of the broken segments were unequal in both chromosomes (combination 3: one with a larger acentric part and the other with a smaller acentric part), the yield of dicentrics was significantly lower than that of translocations (16:30). It was suggested that there was a special mechanism causing preferential reduction of dicentrics in reciprocal exchanges originated from the heteromorphic size of broken chromosomes in the last combination.

Azure Stains↗

PubMed1991

[Cytogenetic analysis of chromosome segments containing radiosensitivity genes in Drosophila. Radiation mutagenesis in the 44-45 region of chromosome 2 of Drosophila melanogaster].

The first step of cytogenetic analysis of Drosophila melanogaster chromosome 2 44F-45D containing the radiosensitivity gene rad(2)201 is described. Using various mutation selection systems as well as lines of different origin and two kinds of ionizing radiation--gamma-rays and neutrons--the mutagenesis in the region of interest is characterized at the cytogenetic level. 85 gamma-induced mutations affecting viability were isolated in the 44F 2-4; 45C6-7 interval, 27% of mutations being chromosomal aberrations. 15 radiation-induced aberrations were obtained by selecting mutations at the white gene inserted into the 45D region by P-mediated transformation. The 44F-45D region is characterized by relatively low frequency of deficiency formation and by significant predomination of heterochromatic aberrations in the spectrum of rearrangements. In these regions, the existence of hot spots for heterochromatic aberrations was discovered. As low deletion frequency is not connected with the presence of haplolethal and haplosterile loci in the region studied, the unusual character of radiation mutagenesis reflects possibly the peculiarities in sequence organization of the chromosomal region mentioned or the packaging in the sperm nuclei.

Animals↗