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Lemskaya NA, Kulemzina AI, Beklemisheva VR, Biltueva LS, Proskuryakova AA, Hallenbeck JM, Perelman PL, Graphodatsky AS. A combined banding method that allows the reliable identification of chromosomes as well as differentiation of AT- and GC-rich heterochromatin. Chromosome Res 2018; 26:307-315. [PMID: 30443803 DOI: 10.1007/s10577-018-9589-9] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/10/2018] [Revised: 10/10/2018] [Accepted: 10/11/2018] [Indexed: 02/06/2023]
Abstract
Сonstitutive heterochromatin areas are revealed by differential staining as C-positive chromosomal regions. These C-positive bands may greatly vary by location, size, and nucleotide composition. CBG-banding is the most commonly used method to detect structural heterochromatin in animals. The difficulty in identification of individual chromosomes represents an unresolved problem of this method as the body of the chromosome is stained uniformly and does not have banding pattern beyond C-bands. Here, we present the method that we called CDAG for sequential heterochromatin staining after differential GTG-banding. The method uses G-banding followed by heat denaturation in the presence of formamide with consecutive fluorochrome staining. The new technique is valid for the concurrent revealing of heterochromatin position due to differential banding of chromosomes and heterochromatin composition (AT-/GC-rich) in animal karyotyping.
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Affiliation(s)
- Natalya A Lemskaya
- Institute of Molecular and Cellular Biology SB RAS, Novosibirsk, Russia.
| | | | | | - Larisa S Biltueva
- Institute of Molecular and Cellular Biology SB RAS, Novosibirsk, Russia
| | - Anastasia A Proskuryakova
- Institute of Molecular and Cellular Biology SB RAS, Novosibirsk, Russia
- Novosibirsk State University, Novosibirsk, Russia
| | - John M Hallenbeck
- Stroke Branch, National Institute of Neurological Disorders and Stroke, National Institutes of Health (NINDS/NIH), Bethesda, MD, USA
| | - Polina L Perelman
- Institute of Molecular and Cellular Biology SB RAS, Novosibirsk, Russia
- Novosibirsk State University, Novosibirsk, Russia
| | - Alexander S Graphodatsky
- Institute of Molecular and Cellular Biology SB RAS, Novosibirsk, Russia
- Novosibirsk State University, Novosibirsk, Russia
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Babu A, Verma RS. Chromosome structure: euchromatin and heterochromatin. INTERNATIONAL REVIEW OF CYTOLOGY 1987; 108:1-60. [PMID: 2822591 DOI: 10.1016/s0074-7696(08)61435-7] [Citation(s) in RCA: 66] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/02/2023]
Affiliation(s)
- A Babu
- Division of Cytogenetics, Interfaith Medical Center, Brooklyn, New York
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Lebo RV, Golbus MS, Cheung MC. Detecting abnormal human chromosome constitutions by dual laser flow cytogenetics. AMERICAN JOURNAL OF MEDICAL GENETICS 1986; 25:519-29. [PMID: 2431619 DOI: 10.1002/ajmg.1320250314] [Citation(s) in RCA: 21] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
Abstract
Our custom dual laser chromosome sorter has been used to characterize and isolate metaphase human chromosomes rapidly for gene mapping purposes. Herein, we tested how well this system could detect unknown abnormal human chromosome constitutions. These results were compared to those of conventional cytogenetic analyses by banding and photomicrography. The sorter was used to analyze each cell line stained with two different stain pairs: DIPI-chromomycin and Hoechst-chromomycin. In 20 min, two histograms representing 2 X 10(5) chromosomes each were collected for each stain pair. A blind study of 11 samples by flow analysis demonstrated excellent concordance between the abnormal chromosomes detected and the diagnoses of Giemsa-banded karyotypes. Aneuploidy was identified by changes in the number of chromosomes in each histogram peak, while rearrangements such as deletions and translocations caused shifts in the histogram peak positions. The direction and distance of histogram peak shifts are directly related to alterations in chromosome size and banding pattern. We conclude that dual-laser flow analysis may provide a rapid approach to the screening and diagnosis of chromosome abnormalities.
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Goday C, Pimpinelli S. Cytological analysis of chromosomes in the two species Parascaris univalens and P. equorum. Chromosoma 1986. [DOI: 10.1007/bf00293524] [Citation(s) in RCA: 19] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/26/2022]
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Zimmer C, Wähnert U. Nonintercalating DNA-binding ligands: specificity of the interaction and their use as tools in biophysical, biochemical and biological investigations of the genetic material. PROGRESS IN BIOPHYSICS AND MOLECULAR BIOLOGY 1986; 47:31-112. [PMID: 2422697 DOI: 10.1016/0079-6107(86)90005-2] [Citation(s) in RCA: 642] [Impact Index Per Article: 16.9] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
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7
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Barros MA, Patton JL. Genome evolution in pocket gophers (genus Thomomys). III. Fluorochrome-revealed heterochromatin heterogeneity. Chromosoma 1985; 92:337-43. [PMID: 4053789 DOI: 10.1007/bf00327464] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023]
Abstract
Heterochromatin is a dominant component of the genome in the bottae group of the pocket gopher genus Thomomys, having had a major role in the karyotypic evolution of member species. Heterochromatin characteristics of two subspecies of T. bottae and one of T. umbrinus were examined with fluorochrome dyes identifying presumptive GC- and AT-rich regions. In two karyotype forms of T. b. fulvus and in T. umbrinus, chromatin that fluoresces brightly with chromomycin A3 is also C-band positive, although not all heterochromatin fluoresces. However, in T. b. bottae, only euchromatic regions fluoresce brightly with chromomycin. Fluorescence patterns produced with DAPI are the reverse of the chromomycin banding in all karyotypic forms. Heterochromatin in these taxa is thus highly differentiated, exhibiting heterogeneity in staining characteristics, and presumably in underlying DNA sequences, both across the genome within a given chromosomal complement as well as among the different karyotypic races and species of the bottae group of pocket gophers.
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Structural and functional aspects of nucleolar organizer regions (NORs) of human chromosomes. INTERNATIONAL REVIEW OF CYTOLOGY 1985; 94:151-76. [PMID: 2410391 DOI: 10.1016/s0074-7696(08)60396-4] [Citation(s) in RCA: 43] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
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9
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Schmid M, Haaf T, Solleder E, Schempp W, Leipoldt M, Heilbronner H. Satellited Y chromosomes: structure, origin, and clinical significance. Hum Genet 1984; 67:72-85. [PMID: 6745929 DOI: 10.1007/bf00270562] [Citation(s) in RCA: 32] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/21/2023]
Abstract
Three cases of inherited satellited Y chromosomes (Yqs) were analysed using several cytogenetic techniques. The cytogenetic data of the 14 cases of Yqs chromosomes described to date were reviewed. All Yqs chromosomes carry an active nucleolus organizer region (NOR) in their long arm and must have developed from translocations involving the short arms of the acrocentric autosomes. The structure of the heterochromatic satellite region in the Yqs chromosomes shows conspicuous inter-familial differences; this permits the reconstruction of the translocations from which the various Yqs were derived. Some causal factors leading to the development of Yqs chromosomes are considered: the specific localization of the four satellite DNAs and highly methylated DNA sequences in the karyotype, and some new experimental data on the spatial arrangement of heterochromatic regions in interphase nuclei. These provide distinct evidence for a preferential involvement of the autosomes 15 and 22 in the translocations with the Y heterochromatin. All clinical reports documenting Yqs males born with malformations were reviewed. It appears that the presence of an extra NOR and NOR-associated heterochromatin in the Yqs chromosomes does not cause any phenotypic abnormalities (as long as the Y euchromatin is intact). The possibility that a Yqs chromosome predisposes to non-disjunction and/or to translocations of other chromosomes is discussed.
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Viegas-Péquignot E, Derbin C, Malfoy B, Taillandier E, Leng M, Dutrillaux B. Z-DNA immunoreactivity in fixed metaphase chromosomes of primates. Proc Natl Acad Sci U S A 1983; 80:5890-4. [PMID: 6351068 PMCID: PMC390181 DOI: 10.1073/pnas.80.19.5890] [Citation(s) in RCA: 38] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/19/2023] Open
Abstract
Antibodies against Z-DNA bind to fixed metaphase chromosomes of man and Cebus albifrons (Platyrrhini, Primate). By indirect immunofluorescence and indirect immunoperoxidase techniques, a heavy staining is detected in some segments of chromosomes of C. albifrons. These segments correspond to R-band-positive heterochromatin, which has a high G + C-base content. Euchromatin of human and Cebus chromosomes show a weak and heterogeneous staining that consistently reproduces an R- and T-banding pattern in both species. Because chromosome homologies previously were demonstrated between these distantly related species by chromosome banding, our results suggest that Z-DNA has been conserved during the course of primate evolution.
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12
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Langlois RG, Yu LC, Gray JW, Carrano AV. Quantitative karyotyping of human chromosomes by dual beam flow cytometry. Proc Natl Acad Sci U S A 1982; 79:7876-80. [PMID: 6961457 PMCID: PMC347452 DOI: 10.1073/pnas.79.24.7876] [Citation(s) in RCA: 104] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/22/2023] Open
Abstract
Dual beam flow cytometry of chromosomes stained with Hoechst 33258 and chromomycin A3 has been proposed as a method for quantitative classification of human chromosomes (bivariate flow karyotyping). In this paper we investigate the sources and magnitudes of variability in the mean fluorescence intensities of each chromosome group resolved in bivariate flow karyotypes and study the impact of this variability on chromosome classification. Replicate bivariate flow karyotypes of chromosomes isolated from lymphocytes from 10 individuals demonstrated that person-to-person variability was significantly greater than run-to-run variability. The total variability was sufficiently small that it did not interfere with classification of normal chromosome types except chromosomes 9 through 12 and chromosomes 14 and 15. Furthermore, the variability was generally smaller than 1/600th of the mitotic genome, so that one-band rearrangements should be detectable in bivariate flow karyotypes.
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Takayama S, Matsumoto K. G-band-like structures and centromeric asymmetry in the BrdU containing mouse chromosomes. Chromosoma 1982; 85:583-90. [PMID: 7128278 DOI: 10.1007/bf00327352] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/23/2023]
Abstract
Mouse cell cultured in the presence of BrdU or BrdC for one replication cycle were stained in a 4Na-EDTA Giemsa solution which stains BrdU-containing chromatin preferentially (Takayama and Tachibana, 1980). With this treatment clear bands (B-bands) were revealed along the length of the chromosomes. The B-banding patterns were identical with the G-banding patterns of this species except for the centromeric region in which lateral asymmetry of Giemsa staining was seen. The concomitant occurrence of the lateral asymmetry with the B-banding supports the assumption that the B-bands visualized by the present technique reflect the BrdU-rich chromatin regions differentially localized along the chromosomes. Most of the chromosomes constituting the mouse karyotype showed their own characteristics appearance of the asymmetry, but in some of them the asymmetry was not clear and the Y did not show any specific, centromeric staining. The marked coincidence of the B- and G-banding patterns seems to provide evidence of the involvement of AT-rich chromatin in the induction of positive G-bands. The present technique also seems quite useful to analyze chromosomes of some species in which ordinary G-banding techniques have been known to bring about only unsatisfactory results.
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Erdtmann B. Aspects of evaluation, significance, and evolution of human C-band heteromorphism. Hum Genet 1982; 61:281-94. [PMID: 6759365 DOI: 10.1007/bf00276592] [Citation(s) in RCA: 40] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/21/2023]
Abstract
The C-band heteromorphism may be evaluated in different forms. The results obtained from classification are easily influenced by subjective factors, and the conclusions of such types of data are acceptable only if they are well matched with a control. The length measurement is simple to obtain, and a quantitative presentation of the data, with correction for the contraction stage of the chromosomes, is considered the most efficient method to evaluate the C-band size heteromorphism. Excluding the acrocentrics, whose short arms present a complex heteromorphism, and the chromosome Y, whose variable C band is terminal, all others present C-band location heteromorphism except pair 16. It is possible to multiply the detectable heteromorphisms in some bands by using diverse staining methods. The present state of knowledge about the role of heterochromatin in the cell is analyzed, as is the effect of C-band variability on the phenotype, the reproductive fitness, and the individual viability. Although a great amount of data is available, no result can be considered definitive as yet. Aspects in which the use of C-band heteromorphisms are profitable are considered.
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Chapter 3. Prenatal Cytogenetic Diagnosis. Methods Cell Biol 1982. [DOI: 10.1016/s0091-679x(08)61363-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register]
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16
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Tantravahi U, Breg WR, Wertelecki V, Erlanger BF, Miller OJ. Evidence for methylation of inactive human rRNA genes in amplified regions. Hum Genet 1981; 56:315-20. [PMID: 6940826 DOI: 10.1007/bf00274686] [Citation(s) in RCA: 40] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/22/2023]
Abstract
In two unrelated families, the short arm of a 14p+ marker chromosome contains an increased number of copies of the 18S + 28S rRNA genes without a comparable increase in the transcriptional activity, as shown by silver staining. The DNA in this region is highly enriched in 5-methylcytosine, as shown by specific antibody binding. In contrast, the owl monkey and cat have a single major nucleolus organizer region (NOR) per haploid genome; these NORs contain about the same number of rRNA genes as the 14p+ chromosome but are not methylated. These findings suggest that most of the amplified human rRNA genes on the 14p+ chromosomes have been inactivated by a process involving DNA methylation.
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Abstract
Chromosome preparations from 67 randomly selected healthy individuals were consecutively stained with silver, mithramycin, pentamidine-DAPI, and quinacrine mustard. In the short arm of the chromosome 15 up to six regions, which were highly polymorphic, apparently independently of each other, could be detected by the given methods. The frequency of occurrence of each individual polymorphic feature in the population investigated ranges from 70% to 87%. They appear randomly and independently of each other.
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18
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Kodama Y, Yoshida MC, Sasaki M. An improved silver staining technique for nucleolus organizer regions by using nylon cloth. JINRUI IDENGAKU ZASSHI. THE JAPANESE JOURNAL OF HUMAN GENETICS 1980; 25:229-33. [PMID: 6163881 DOI: 10.1007/bf01997700] [Citation(s) in RCA: 71] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
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Balícek P, Zizka J. Intercalar satellites of human acrocentric chromosomes as a cytological manifestation of polymorphism in GC-rich material? Hum Genet 1980; 54:343-7. [PMID: 6156886 DOI: 10.1007/bf00291580] [Citation(s) in RCA: 16] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
Abstract
Fifteen unrelated individuals were found among the patients of the Cytogenetics Laboratory who possessed multiple-satellited marker chromosomes (14 with double satellites and 1 with triple satellites). Cytogenetic analysis was carried out by means of a conventional staining method and also by R, C, and Q banding and by the technique of silver staining. The intercalar structures of all 15 cases differed from the terminal satellites in their biochemical composition: they were resistant to heat denaturation, and stained heavily with the R-banding technique. Accordingly, they consisted of GC-rich material identical with that which in varying quantity is a regular constituent of the short arms of acrocentric chromosomes. The findings described indicate that any larger accumulation of such R band-positive material tends to dissociate from the basal segment of short arms by a proximal secondary constriction. We therefore assume that the formation of intercalar satellites may be interpreted as a cytological consequence of extreme natural R polymorphism.
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Langlois RG, Carrano AV, Gray JW, Van Dilla MA. Cytochemical studies of metaphase chromosomes by flow cytometry. Chromosoma 1980; 77:229-51. [PMID: 7371453 DOI: 10.1007/bf00286050] [Citation(s) in RCA: 66] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/24/2023]
Abstract
The cytochemical properties of metaphase chromosomes from Chinese hamster and human cells were studied by flow cytometry. This technique allows precise quantitation of the fluorescence properties of individual stained chromosome types. Chromosomes were stained with the following fluorescent DNA stains: Hoechst 33258, DAPI, chromomycin A3, ethidium bromide, and propidium iodide. The relative fluorescence of individual chromosome types varied depending on the stain used, demonstrating that individual chromosome types differ in chemical properties. Flow measurements were performed as a function of stain and chromosome concentration to characterize the number and distribution of stain binding sites. Flow analysis of double stained chromosomes show that bound stains interact by energy transfer with little or no binding competition. For most hamster chromosomes, there is a strong correlation between relative fluorescence and stain base preference suggesting that staining differences may be determined primarily by differences in average base composition. A few hamster chromosome types exhibit anomalous staining which suggests that some other property, such as repetitive DNA sequences, also may be an important determinant of chromosomal staining.
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21
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Buys CH, Anders GJ, Borkent-Ypma JM, Blenkers-Platter JA, van der Hoek-van der Veen AY. Familial transmission of a translocation Y/14. Hum Genet 1979; 53:125-7. [PMID: 575349 DOI: 10.1007/bf00289465] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Abstract
A translocation of heterochromatic material, brightly fluorescent after actinomycin D-DAPI staining, to the short arm of chromosome 14 was prenatally detected during cytogenetic examination of cells obtained by amniocentesis on the indication of advanced maternal age. Besides this abnormal chromosome, 43 autosomes and two X chromosomes were present. Silver staining made clear that an active nucleolus-organizing region was included in the translocation product. Both the intense fluorescence and the size of the translocated extra heterochromatic block were indicative of a Yq origin. Upon cytogenetic investigation of the parents, the mother appeared to carry the same t(Y;14) chromosome. Therefore, we expected a normal girl to be born. This was confirmed after birth.
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Zanzoni F, Baumann JW, Jung EG. Sister chromatid exchange (SCE) in human lymphocytes. Effect of UV C irradiation and age. Arch Dermatol Res 1979; 265:283-7. [PMID: 475452 DOI: 10.1007/bf00412385] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Abstract
The number of sister chromatid exchanges (SCE) per metaphase was determined in normal human lymphocytes by the Hoechst-Giemsa procedure. UV C irradiation promotes SCE dose-dependent in the range of 0-40 mJ/cm2. No difference of this phenomenon may be observed, compairing young volunteers (20-40 years) with a 60-80-year-old group.
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Abstract
Silver-stained cells from 49 parents with a history of several abortions were compared with cells from 35 parents with normal liveborn children. The modal and mean number of silver-stained NORs (Ag-NORs) observed on D- or G-group chromosomes was similar in both groups and between males and females. Ag-NORs were randomly distributed on all five acrocentric pairs. The distribution and size of Ag-NORs within an individual was not random and was fairly consistent from cell to cell. The mean number of associations per cell was similar in both males and females of the abortion group and was less than the number of associations in controls. The probability of D- or G-group chromosomes being associated was near the expected probability of 0.6 for D-association and 0.4 for G-association. The frequency of association of any chromosome combination did not differ statistically from the expected values, though the number of associations, 15/22, was higher than expected.
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Sigmund J, Schwarz S. Variable substructure in the secondary constriction of the human chromosome 1. Hum Genet 1979; 46:1-4. [PMID: 429000 DOI: 10.1007/bf00278895] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Abstract
The secondary constriction in human chromosome 1 consists of a proximal segment stained by the GC-specific fluorochrome mithramycin and a distal segment stained by such fluorochromes as DAPI or DIPI, which show enhanced fluorescence intensities in AT-rich regions of the chromosomes. A study involving 21 individuals revealed that both parts are independently involved in length variability. In two cases, two GC-rich regions separated by an AT-rich segment and an additional distal AT-rich part were found.
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