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Human monochromosome hybrid cell panel characterized by FISH in the JCRB/HSRRB Hideyuki Tanabe 1 , Yuzuki Nakagawa 2 , Daisuke Minegishi 1 , Katsuyuki Hashimoto 3 , Noriho Tanaka 2 , Mitsuo Oshimura 4 , Toshio Sofuni 5 & Hiroshi Mizusawa 1 1 Cell Bank Laboratory, Division of Genetics and Mutagenesis, National Institute of Health Sciences, 1-18-1, Kamiyoga, Setagaya-ku, Tokyo 158-8501, Japan; Tel: ( 81) 3 3700 9874; Fax: ( 81) 3 3707 6950; E-mail: [email protected]; 2 Laboratory of Cell Toxicology, Department of Cellular and Genetic Toxicology, Hatano Research Institute of Food and Drug Safety Center, 729-5, Ochiai, Hadano, Kanagawa 257-8523, Japan; 3 Division of Genetic Resources, National Institute of Infectious Diseases, 1-23-1, Toyama, Shinjuku-ku, Tokyo 162-8640, Japan; 4 Department of Molecular and Cell Genetics, School of Life Science, Faculty of Medicine, Tottori University, 86, Nishimachi, Yonago, Tottori 683-8503, Japan; 5 Chromosome Research Center, Olympus Optical Co. Ltd., 2-3, Kuboyamacho, Hachioji, Tokyo 192-8512, Japan Received 3 January 2000; received in revised form and accepted for publication by M. Schmid 28 February 2000 Key words: FISH, human monochromosome hybrid cell panel, JCRB (Japanese Collection of Research Bioresources), mouse A9 cells, reverse FISH Abstract The human monochromosome hybrid cell panel in the Japanese Collection of Research Bioresources (JCRB) consists of 23 mouse cell clones, each containing a different human chromosome (the Y chromosome is not yet included). The panel is currently distributed by the Human Science Research Resources Bank (HSRRB) in Osaka. In order to determine the state of the human chromosomes and to supply the information to investigators, we characterized the cells by £uorescence in-situ hybridization (FISH) with corresponding human chromosome-speci¢c painting probes, and, in part, by reverse FISH with the hybrid total DNA hybridized onto human metaphase spreads. Here, we report the frequency of intact human chromosomes maintained in each hybrid and the retained subregions of corresponding human chromosomes with relative frequencies estimated by £uorescent intensity. We used speci¢c painted patterns to classify each hybrid into tentative types with their frequencies showing the nature of each hybrid and the state of rearrangements. This characterization will provide valuable information to investigators using the panel. Introduction The human monochromosome hybrid cell panel was established by Oshimura and his colleagues and deposited in the Cell Bank of the JCRB (Japanese Collection of Research Bioresources)/HSRRB (Human Science Research Resources Bank). By means of microcell-mediated chromosome transfer, single chromosomes derived from normal human cells were introduced into mouse A9 cells, except for chromosome 9, which was introduced into CHO cells. The hybrids containing transferred single human chromosomes, which were tagged with a dominant marker gene for resistance to neomycin, Chromosome Research 8: 319^334, 2000. 319 # 2000 Kluwer Academic Publishers. Printed in the Netherlands

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Page 1: Human monochromosome hybrid cell panel characterized by ... · JCRB2210 A9(Bsr10) 10 Blasticidin Primarye 32.4 97.1 64.7 JCRB2211 A9(Neo11) 11 G418 MRC-5 100 100 0 JCRB2212 A9(Neo12)

Human monochromosome hybrid cell panel characterized by FISH in theJCRB/HSRRB

Hideyuki Tanabe1, Yuzuki Nakagawa2, Daisuke Minegishi1, Katsuyuki Hashimoto3, Noriho Tanaka2, MitsuoOshimura4, Toshio Sofuni5 & Hiroshi Mizusawa11Cell Bank Laboratory, Division of Genetics and Mutagenesis, National Institute of Health Sciences, 1-18-1,Kamiyoga, Setagaya-ku, Tokyo 158-8501, Japan; Tel: (� 81) 3 3700 9874; Fax: (� 81) 3 3707 6950; E-mail:[email protected]; 2Laboratory of Cell Toxicology, Department of Cellular and Genetic Toxicology, HatanoResearch Institute of Food andDrugSafetyCenter, 729-5,Ochiai,Hadano,Kanagawa 257-8523, Japan; 3Divisionof Genetic Resources, National Institute of Infectious Diseases, 1-23-1, Toyama, Shinjuku-ku, Tokyo 162-8640,Japan; 4Department of Molecular and Cell Genetics, School of Life Science, Faculty of Medicine, TottoriUniversity, 86, Nishimachi, Yonago, Tottori 683-8503, Japan; 5Chromosome Research Center, Olympus OpticalCo. Ltd., 2-3, Kuboyamacho, Hachioji, Tokyo 192-8512, Japan

Received 3 January 2000; received in revised form and accepted for publication by M. Schmid 28 February 2000

Key words: FISH, human monochromosome hybrid cell panel, JCRB (Japanese Collection of ResearchBioresources), mouse A9 cells, reverse FISH

Abstract

The human monochromosome hybrid cell panel in the Japanese Collection of Research Bioresources (JCRB)consists of 23 mouse cell clones, each containing a different human chromosome (the Y chromosome isnot yet included). The panel is currently distributed by the Human Science Research Resources Bank (HSRRB)in Osaka. In order to determine the state of the human chromosomes and to supply the information toinvestigators, we characterized the cells by £uorescence in-situ hybridization (FISH) with corresponding humanchromosome-speci¢c painting probes, and, in part, by reverse FISHwith the hybrid total DNA hybridized ontohuman metaphase spreads. Here, we report the frequency of intact human chromosomes maintained in eachhybrid and the retained subregions of corresponding human chromosomes with relative frequencies estimatedby £uorescent intensity. We used speci¢c painted patterns to classify each hybrid into tentative types withtheir frequencies showing the nature of each hybrid and the state of rearrangements. This characterizationwill provide valuable information to investigators using the panel.

Introduction

The human monochromosome hybrid cell panel wasestablished by Oshimura and his colleagues anddeposited in the Cell Bank of the JCRB (JapaneseCollection of Research Bioresources)/HSRRB(Human Science Research Resources Bank). By

means of microcell-mediated chromosome transfer,single chromosomes derived from normal humancells were introduced into mouse A9 cells, exceptfor chromosome 9, which was introduced intoCHO cells. The hybrids containing transferred singlehuman chromosomes, which were tagged with adominant marker gene for resistance to neomycin,

Chromosome Research 8: 319^334, 2000. 319# 2000 Kluwer Academic Publishers. Printed in the Netherlands

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blasticidin, hygromycin, or histidinol, were selectedand cloned (Koi et al. 1989a, 1989b). The collectionof cell lines is registered as JCRB2201^2223 and eachhuman chromosome except Y is represented in oneof the lines (Table 1). Total genomic DNAsextracted from those cells, which were frozen inampules and listed on the board of the JCRB CellBank, are available through JCRB/HSRRB GeneBank hhttp://www.nih.go.jp/yoken/genebank/i.Human^rodent somatic cell hybrids have been gen-erally used for construction of genomic libraries,assignment of genes, or isolation of DNA markers.Most of them, however, consist of several hybridscontaining partial human chromosomes or morecomplicated composites, except for NIGMS map-ping panel 2 (Ledbetter et al. 1990, Warburton etal. 1990, Ning et al. 1992, 1993, Drwinga et al. 1993,Dubois & Naylor 1993, Leonard et al. 1997, 1998,1999). In contrast, the panel presented here consistsof a set of hybrid cells with each single human

chromosome; only the Y chromosome is not yetincluded. This will provide a valuable resource forfunctional analyses of human chromosomes withregard to speci¢c chromosomal or subchromosomalregions. Indeed, utilization of the panel has alreadyled to information on many aspects of gene function,including DNA repair, ageing, and tumor sup-pression (Ejima et al. 1990, Kugoh et al. 1990,Yamada et al. 1990, Tanaka et al. 1991, Kurimasaet al. 1994, Katoh et al. 1995, Jongmans et al. 1996,Matsuura et al. 1997, Kodama et al. 1998, Uzawaet al. 1998, Cui et al. 1999). A remarkable advanceis the `trans-chromosomic mouse' project in whichTomizuka and his colleagues have utilized A9hybrids containing a human chromosome 2 (IgLkappa), 14 (IgH), or 22 (IgL lambda) and have suc-cessfully introduced these human chromosomes intomouse embryonic stem cells via microcell-mediatedchromosome transfer (Tomizuka et al. 1997, 2000).These mice stably express human-type immuno-

Table 1. Human monochromosome hybrid cell panel.

Cell no. Line Humanchromosome

Selection Origina Intactchromosomes (%)b

Signals(%)c

Rearranged(%)d

JCRB2201 A9(Neo1) 1 G418 An 45.4 95.4 50.0JCRB2202 A9(Neo2) 2 G418 An 90.8 93.9 3.1JCRB2203 A9(Neo3) 3 G418 NTI-4 84.9 84.9 0JCRB2204 A9(Neo4) 4 G418 MRC-5 100 100 0JCRB2205 A9(Neo5) 5 G418 Mo 94.1 94.1 0JCRB2206 A9(Neo6) 6 G418 An 98.1 98.1 0JCRB2207 A9(Neo7) 7 G418 NTI-4 100 100 0JCRB2208 A9(Neo8) 8 G418 Mo 100 100 0JCRB2209 CHO(His9) 9 Histidinol Primary 0 100 100JCRB2210 A9(Bsr10) 10 Blasticidin Primarye 32.4 97.1 64.7JCRB2211 A9(Neo11) 11 G418 MRC-5 100 100 0JCRB2212 A9(Neo12) 12 G418 NTI-4 0 100 100JCRB2213 A9(Hygro13) 13 Hygromycin Primary 80.9 80.9 0JCRB2214 A9(Hygro14) 14 Hygromycin Primary 96.1 96.1 0JCRB2215 A9(Neo15) 15 G418 An 100 100 0JCRB2216 A9(Neo16) 16 G418 Primary 100 100 0JCRB2217 A9(Neo17) 17 G418 Primary 77.8 87.0 9.2JCRB2218 A9(Neo18) 18 G418 Mo 100 100 0JCRB2219 A9(Neo19) 19 G418 MRC-5 100 100 0JCRB2220 A9(Neo20) 20 G418 Mo 68.5 93.2 24.7JCRB2221 A9(Hygro21) 21 Hygromycin Primary 96.0 100 4.0JCRB2222 A9(Hygro22) 22 Hygromycin Primary 0 100 100JCRB2223 A9(BsrX) X Blasticidin Primarye 16.7 100 83.3

aCells from which human chromosome was derived.bFrequency of intact chromosomes detected by whole chromosome painting (WCP) probes.c Frequency of any signals detected by respective WCP probes.d Frequency of chromosome rearrangement (c minus b).e These two hybrids contain a chromosome derived from ¢broblasts of the same Japanese male.

320 H. Tanabe et al.

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globulins in a proper tissue-speci¢c manner. Thisnovel procedure is expected to have therapeuticapplications.

In the present study, we report the results of adetailed analysis of the JCRB panel aimed at anextensive characterization as a process of qualitycontrol identifying the human chromosomal regionsby £uorescence in situ hybridization (FISH) withcorresponding human chromosome-speci¢c paintingprobes, which are called whole chromosome paint-ing (WCP) probes, and in part combined by reverseFISH (revish) with total DNA of the hybrid ontonormal human metaphase spreads. We believe theseresults provide useful information for investigatorsto study further functional genomics.

Materials and methods

Cells and chromosome preparation

Cells registered as JCRB2201^2223 in the JCRBCellBank were used (detailed information of each cellline is referred to in the web sitehhttp://cellbank.nihs.go.jp/i). Metaphase spreadsof each cell line were obtained by the standardprocedure. Brie£y, cells were cultured in mediumcontaining 0.02^0.04 mg/ml colcemide (Gibco BRL)for 2^4 h, exposed to hypotonic solution (0.2%trisodium citrate� 0.06 mol/L potassium chloride)for 20 min, and ¢xed with Carnoy's ¢xative. Cellsuspension was dropped onto glass slides, air-dried,and stored in a freezer until use.

Fluorescence in situ hybridization (FISH) andreverse FISH (revish)

SpectrumGreen-labeled WCP probes speci¢c forhuman chromosomes 1, 5, 9 and X were obtainedfrom Vysis Inc., and Cy3-labeled WCP probesspeci¢c for all other human chromosomes wereobtained from Amersham, Co. Ltd. All probes wereused according to the manufacturers' instructions.Approximately 50 metaphases per probe wereanalyzed. Revish procedure was basically the sameas that previously described (Tanabe et al. 1995).In brief, total genomic DNAs of cell lines wereobtained by the GenTle solution kit (Takara),labeled with biotin-16-dUTP (Boerhinger) by nicktranslation, and hybridized onto the normal human

metaphase spreads with a 20-fold excess of humanCotI DNA (Gibco BRL). After hybridization, thebiotinylated DNA probe was visualized byFITC-conjugated avidin and biotinylatedanti-avidin antibody combination system (Vector).The slides were counterstained with DAPI(0.05 mg/ml) in antifade medium.

Fluorescence microscopy and imaging

Fluorescent images were observed by a ZeissAxiophot2 epi£uorescence microscope equippedwith an Apochromato �63 objective lens and the¢lter set for DAPI, FITC, and TRITC, capturedby a Photometrics PXL cooled CCD camera, andcolorized by theMultiFluor Electronic Photographysystem (Biological Detection, Inc.). In revish, £uor-escent intensities along with the painted chromo-somes were analyzed by Optimas 5.1 andgraphically presented. The chromosomal deletedregions were estimated by the data of relative £uor-escent intensities from approximately 10 metaphasesper probe.

Results

First, metaphases were examined by means ofQFH-banding analysis. In some hybrids the humanchromosome was cytogenetically normal, but inothers there were remarkable rearrangements,including interstitial deletions and/or translocationsbetween human and host chromosomes, althoughthe rearrangement frequencies were relatively low(Nakagawa et al. 1996). To characterize them moreprecisely, we used WCP probes to determine the fre-quency of cells that retained the humanchromosome. As shown in Table 1, a relatively highpercentage of rearrangements was found in thehybrids containing human chromosomes 1, 9, 10,12, 20, 22, or X. Even though, in highly rearrangedchromosomes, it is dif¢cult to determine whichhuman chromosomal regions are retained byWCP analysis, nevertheless, the revish techniqueenables such determination with precision, and theirrelative frequency as well. We have assigned tenta-tive types corresponding to different patterns ofWCP signals in each hybrid and our efforts to incor-porate information from detailed characterizationare described in Table 2, and photomicrographsare shown in Figures 1 and 2.

Human monochromosome panel characterized by FISH 321

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Tab

le2.

Summaryof

WCPan

alysis

andassign

mentof

atentativetype

ofhu

man

chromosom

ein

each

hybrid.

322 H. Tanabe et al.

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Tab

le2.öcontinued

Human monochromosome panel characterized by FISH 323

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Table

2.öcontinued

324 H. Tanabe et al.

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Table

2.ö

continued

Human monochromosome panel characterized by FISH 325

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Tab

le2.ö

continued

aT

indicateshu

man

/rod

ent(host)

tran

slocated

chromosom

e.bM

means

morph

olog

yof

human

chromosom

esor

human

/rod

entrearrang

edchromosom

e.M=metacentric,SM

=subm

etacentric,A=acrocentric,

T=telocentric.

326 H. Tanabe et al.

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Figure 1. Representative metaphase images in each A9 cell hybrid after FISH with corresponding WCP probes and their tentative types.Insets show the DAPI image of the painted chromosomes. Asterisks show the rearranged chromosome of interest revealed byWCP signals.(j) shows a DAPI-stained image of the same metaphase as in (i).

Human monochromosome panel characterized by FISH 327

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328 H. Tanabe et al.

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Human monochromosome panel characterized by FISH 329

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330 H. Tanabe et al.

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Figure 2. Summary of revish results of (a) CHO(His9), (b) A9(Neo12), and (c) A9(Neo20). Normal human metaphase images are shownafter FISHwith total genomicDNAs obtained from each hybrid. Insets show the painted chromosomes with their DAPI image. Fluorescentintensities along with the painted chromosomes are graphically presented by Optimas 5.1, and deleted subregions are shown between thebars.

Human monochromosome panel characterized by FISH 331

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Discussion

The majority of the hybrids contained intact humanchromosomes at relatively high frequencies. Thosewith human chromosomes 1, 9, 10, 12, 20, 22,and X, however, contained a high frequency ofrearrangements. Therefore, new clones should beisolated by recloning procedures, or differenthybrids should be prepared by microcell-mediatedchromosome transfer. The observed instabilitiesmay be due to relationships between the hostgenome and endogeneous factors on the introducedhuman chromosomes, but it is also possible thatthe telomere lengths of the human chromosomesare shorter than those of the mouse chromosomes,resulting in the earlier unstable structures whichoccurred on the human chromosomes, althoughthose instabilities are constrained under the geneticregulation of telomerase in multiple pathways(Kipling & Cooke 1990, Oshimura et al. 1996).Moreover, speci¢c genes on the introduced humanchromosomes could have affected the chromosomalstability. For example, CDKN2A (cyclin-dependent kinase inhibitor 2A) at 9p21 mediatesthe rapid growth-arrest response associated withhuman chromosome 9 (England et al. 1996). Whenchromosome 9 is present in proliferating clonesof A9 hybrids, it either carries microdeletionsinvolving the CDKN2A region or the region isepigenetically silenced (the former is twice asfrequent). Thus, A9 hybrids with human chromo-some 9 are prone to induced chromosomal deletioninvolving 9p21 regions leading to high rearrange-ments, rather than the epigenetic silencing ofCDKN2A (England et al. 1996). As for chromo-some 12, isochromosome 12p is commonly detectedin ¢broblasts of Pallister^Killian syndrome patients(Raffel et al. 1986, Ohashi et al. 1993, Dutly etal. 1998, Struthers et al. 1999) and an A9 hybridcontaining i(12p) as a sole human chromosomewas constructed a decade ago (Zhang et al. 1989).A9(Neo12) of the present panel with its high fre-quency of i(12p) will provide a suitable model forthe study of the way isochromosomes form andoperate.

We believe that results characterizing the presentpanel molecular cytogenetically are prerequisitefor any further scienti¢c work, in particular forthe purpose of functional genomics or for investi-gation of fundamental cellular mechanisms, as is

coming in the post-human genome era. Actually,several studies have already been reported intelomerase activity and cellular sensescence(Horikawa et al. 1998, Tanaka et al. 1998, 1999,Uejima et al. 1998, Kugoh et al. 2000), geneexpression (Suzuki et al. 1997, Mitsuya et al. 1999),and genomic imprinting (Meguro et al. 1997,Mitsuya et al. 1998, Kugoh et al. 1999, Lee et al.1999). In addition, via microcell-mediated chromo-some transfer from A9 hybrids to chicken DT40cells, which have a high homologous recombinationpro¢ciency, chromosome modi¢cation bytelomere-directed truncation of human chromo-somes transferred back to A9 hybrids has nowbecome a realistic technique (Koi et al. 1997,Kuroiwa et al. 1998, Mills et al. 1999).

The human chromosomes in all the hybridsdiscussed here tended to have internalrearrangements or translocations with the hostchromosomes. Accordingly, investigators using thehybrids have to pay attention to this propertyand avoid inappropriate culture conditions.Whetherthe JCRB hybrids contain the intact human chromo-some with high frequency or not, it is important tocharacterize the resource as extensively as possibleand to provide the information to investigators.Thus, we have made our data available at theweb site hhttp://cellbank.nihs.go.jp/i and we hopeit will be of value.

Note: Correspondence requesting panel cell linesshould be addressed to: HSRRB in Osaka Branchof National Institute of Health Sciences, 1-1-43,Hoen-Zaka, Chuo-ku, Osaka 540-0006, Japan; c/oDr. Toho Yoshida; Tel: � 81-6-945-2869; Fax:� 81-6-945-2872; E-mail: [email protected];URL:hhttp://cellbank.nihs.go.jp/i.

Acknowledgements

This study was supported in part by the grant-in-aidfor the human genome and gene therapy programfrom the Ministry of Health and Welfare of Japanand a grant-in-aid from the Japan Health ScienceFoundation.

332 H. Tanabe et al.

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