Murine Leukemia Virus Genome: Frequency of Sequences in … · tories, P.O. BoxNo. 123, London,...

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Proc. Nat. Acad. Sci. USA Vol. 71, No. 9, pp. 3555-3559, September 1974 AKR Murine Leukemia Virus Genome: Frequency of Sequences in DNA of High-, Low-, and Non-Virus-Yielding Mouse Strains (RNA virus/reassociation kinetics) DOUGLAS R. LOWY*, SISIR K. CHATTOPADHYAYt, NATALIE M. TEICHt, WALLACE P. ROWE, AND ARTHUR S. LEVINE§ Laboratory of Viral Diseases, National Institute of Allergy and Infectious Diseases, and §Section on Infectious Diseases, National Cancer Institute, National Institutes of Health, Bethesda, Maryland 20014 Communicated by Robert M. Chanock, June 24, 1974 ABSTRACT Studies with a single-stranded DNA probe complementary to the RNA of mouse-tropic AKR murine leukemia virus indicate that the complete genome of the AKR-type murine leukemia virus is present in the DNA of high- and low-virus-yieldiing mouse strains, while DNA of non-virus-yielding strains contains only a part of the genome. Furthermore, in those strains where the genome is complete, two populations of virus-specilic DNA sequences can be identified (more abundant and less abundant species) according to their rate of association with the probe. Low-virus-yielding mouse strains contain fewer copies of the less abundant species and, conse- quently, fewer complete viral genomes than do high-virus- yielding strains. Thus, in the ten strains tested, there is a good correlation between completeness of the genome of AKR-type murine leukemia virus in cellular DNA and the capacity of the cells to release infectious AKR-type murine leukemia virus. Moreover, the number of complete viral genomes correlates with the frequency of infectious virus production by virus-positive strains. DNA from wild Mus musculus also contained viral sequences, the sample tested showing reassociation kinetics identical to the non-virus-producing strains. Inbred mouse strains vary markedly in their incidence of spon- taneous leukemia. Mice of high leukemic strains regularly contain large amounts of mouse-tropic (AKR-type) murine leukemia virus (MLV) early in life (1). Low leukemic strains fall into two categories virologically. Some strains demon- strate AKR-type virus, but less often and later in life (low- virus-yielders), other strains never yield AKR-type virus (non-virus-yielders) (2). All strains of mice thus far studied contain xenotropic C-type viruses, which differ markedly from the AKR-type virus in host range (being unable to exogenously infect mouse cells in tissue culture), interference specificity, and envelope antigens, but contain the same group specific (gs) antigen and RNA-directed DNA polymerase (3-6). Thus, the term "virus-yielding" in this report relates only to the AKR-type virus. Considerable evidence has ac- Abbreviations: MLV, murine leukemia virus; AKR-DNA, 129- DNA, DBA-DNA, etc., DNA from the cells of embryos of the corresponding mouse strain; NaDodSO4, sodium dodecyl sulfate; Te5O, midpoint of thermal elution profile. * Present address: Department of Dermatology, Yale University School of Medicine, New Haven, Conn. 06511. t Request reprints from: Sisir K. Chattopadhyay, Laboratory of Viral Diseases, NIH, Bldg. no. 7, Room 304A, Bethesda, Md. 20014. t Present address: The Imperial Cancer Research Fund Labora- tories, P.O. Box No. 123, London, WC2A 3 PX, England. 3555 cumulated indicating that in virus-yielding strains the MLV genome is present in a stable heritable form (7-9). Further- more, it has been established that genetic material of C-type viruses is present in cellular DNA (10-16). However, since most previous studies failed to detect a difference in the viral- specific DNA of high-, low-, and non-virus-yielding strains, it has not been clear what mechanisms determine whether in- fectious virus is produced and the frequency with which pro- duction occurs. We have recently reported qualitative and quantitative studies of the viral-specific nucleotide sequences present in the cellular DNA of a high-virus-yielding mouse strain (AKR) and a non-virus-yielding strain (NIH Swiss) (16). In these ex- periments, we used a single-stranded DNA probe made in an endogenous reaction with detergent-disrupted AKR-MLV virions. Association kinetics, as well as saturation hybridiza- tion in the presence of an excess of cellular DNA, were used in this study; it was found that the complete AKR-MLV genome is present in the AKR-DNA, whereas it is incomplete in the NIH-DNA. Scolnick et al. (17) independently observed that NIH 3T3 and a virus-negative feral mouse cell line con- tain a lower amount of sequences specific for Kirsten strain of murine leukemia virus in their DNA than do either BALB/c or C57BL/6, both of which are low-virus-yielding strains. In the present report, we extend our observation to other mouse strains, including low-virus-yielders and additional high- and non-virus-yielding strains. The studies indicate that of the 11 strains tested, high-virus strains contain multiple complete copies of the AKR-type MLV genome, low-virus strains possess the complete genome but contain fewer copies, and the non-virus-yielding strains lack a major portion of the viral genome. MATERIALS AND METHODS Mouse Embryos. The laboratory mouse strains used were: high-virus-yielders: AKR/J and C3H/FgLw (received from Dr. E. A. Boyse); low-virus-yielders: BALB/cN, DBA/2N, C57BL/6J, and C3H/HeN; non-virus-yielders: NIH Swiss, C57L/J, 129/J, and NZB/N. Pregnant mice were killed by cervical dislocation and the embryos were removed aseptically and freed from the placenta and fetal membranes. AKR em- bryos were taken on the 14th-16th day, and C3H/FgLw on the 15th-18th day of gestation, a time when the embryos are virtually free of detectable virus (1). The other mice were obtained on the 18th-20th day of gestation. Embryos were dipped in ether, allowed to dry, and frozen at -70° until use. Downloaded by guest on January 1, 2021

Transcript of Murine Leukemia Virus Genome: Frequency of Sequences in … · tories, P.O. BoxNo. 123, London,...

Page 1: Murine Leukemia Virus Genome: Frequency of Sequences in … · tories, P.O. BoxNo. 123, London, WC2A3 PX,England. 3555 cumulated indicating that in virus-yielding strains the MLV

Proc. Nat. Acad. Sci. USAVol. 71, No. 9, pp. 3555-3559, September 1974

AKR Murine Leukemia Virus Genome: Frequency of Sequences in DNA ofHigh-, Low-, and Non-Virus-Yielding Mouse Strains

(RNA virus/reassociation kinetics)

DOUGLAS R. LOWY*, SISIR K. CHATTOPADHYAYt, NATALIE M. TEICHt, WALLACE P. ROWE, ANDARTHUR S. LEVINE§

Laboratory of Viral Diseases, National Institute of Allergy and Infectious Diseases, and §Section on Infectious Diseases, NationalCancer Institute, National Institutes of Health, Bethesda, Maryland 20014

Communicated by Robert M. Chanock, June 24, 1974

ABSTRACT Studies with a single-stranded DNA probecomplementary to the RNA of mouse-tropic AKR murineleukemia virus indicate that the complete genome of theAKR-type murine leukemia virus is present in the DNAof high- and low-virus-yieldiing mouse strains, whileDNA of non-virus-yielding strains contains only a part ofthe genome. Furthermore, in those strains where thegenome is complete, two populations of virus-specilicDNA sequences can be identified (more abundant and lessabundant species) according to their rate of associationwith the probe. Low-virus-yielding mouse strains containfewer copies of the less abundant species and, conse-quently, fewer complete viral genomes than do high-virus-yielding strains. Thus, in the ten strains tested, there is agood correlation between completeness of the genome ofAKR-type murine leukemia virus in cellular DNA and thecapacity of the cells to release infectious AKR-type murineleukemia virus. Moreover, the number of complete viralgenomes correlates with the frequency of infectious virusproduction by virus-positive strains. DNA from wildMus musculus also contained viral sequences, the sampletested showing reassociation kinetics identical to thenon-virus-producing strains.

Inbred mouse strains vary markedly in their incidence of spon-taneous leukemia. Mice of high leukemic strains regularlycontain large amounts of mouse-tropic (AKR-type) murineleukemia virus (MLV) early in life (1). Low leukemic strainsfall into two categories virologically. Some strains demon-strate AKR-type virus, but less often and later in life (low-virus-yielders), other strains never yield AKR-type virus(non-virus-yielders) (2). All strains of mice thus far studiedcontain xenotropic C-type viruses, which differ markedlyfrom the AKR-type virus in host range (being unable toexogenously infect mouse cells in tissue culture), interferencespecificity, and envelope antigens, but contain the same groupspecific (gs) antigen and RNA-directed DNA polymerase(3-6). Thus, the term "virus-yielding" in this report relatesonly to the AKR-type virus. Considerable evidence has ac-

Abbreviations: MLV, murine leukemia virus; AKR-DNA, 129-DNA, DBA-DNA, etc., DNA from the cells of embryos of thecorresponding mouse strain; NaDodSO4, sodium dodecyl sulfate;Te5O, midpoint of thermal elution profile.* Present address: Department of Dermatology, Yale UniversitySchool of Medicine, New Haven, Conn. 06511.t Request reprints from: Sisir K. Chattopadhyay, Laboratory ofViral Diseases, NIH, Bldg. no. 7, Room 304A, Bethesda, Md.20014.t Present address: The Imperial Cancer Research Fund Labora-tories, P.O. Box No. 123, London, WC2A 3 PX, England.

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cumulated indicating that in virus-yielding strains the MLVgenome is present in a stable heritable form (7-9). Further-more, it has been established that genetic material of C-typeviruses is present in cellular DNA (10-16). However, sincemost previous studies failed to detect a difference in the viral-specific DNA of high-, low-, and non-virus-yielding strains,it has not been clear what mechanisms determine whether in-fectious virus is produced and the frequency with which pro-duction occurs.We have recently reported qualitative and quantitative

studies of the viral-specific nucleotide sequences present in thecellular DNA of a high-virus-yielding mouse strain (AKR)and a non-virus-yielding strain (NIH Swiss) (16). In these ex-periments, we used a single-stranded DNA probe made inan endogenous reaction with detergent-disrupted AKR-MLVvirions. Association kinetics, as well as saturation hybridiza-tion in the presence of an excess of cellular DNA, were usedin this study; it was found that the complete AKR-MLVgenome is present in the AKR-DNA, whereas it is incompletein the NIH-DNA. Scolnick et al. (17) independently observedthat NIH 3T3 and a virus-negative feral mouse cell line con-tain a lower amount of sequences specific for Kirsten strainof murine leukemia virus in their DNA than do either BALB/cor C57BL/6, both of which are low-virus-yielding strains. Inthe present report, we extend our observation to other mousestrains, including low-virus-yielders and additional high-and non-virus-yielding strains. The studies indicate that of the11 strains tested, high-virus strains contain multiple completecopies of the AKR-type MLV genome, low-virus strainspossess the complete genome but contain fewer copies, andthe non-virus-yielding strains lack a major portion of the viralgenome.

MATERIALS AND METHODS

Mouse Embryos. The laboratory mouse strains used were:high-virus-yielders: AKR/J and C3H/FgLw (received fromDr. E. A. Boyse); low-virus-yielders: BALB/cN, DBA/2N,C57BL/6J, and C3H/HeN; non-virus-yielders: NIH Swiss,C57L/J, 129/J, and NZB/N. Pregnant mice were killed bycervical dislocation and the embryos were removed asepticallyand freed from the placenta and fetal membranes. AKR em-bryos were taken on the 14th-16th day, and C3H/FgLw onthe 15th-18th day of gestation, a time when the embryos arevirtually free of detectable virus (1). The other mice wereobtained on the 18th-20th day of gestation. Embryos weredipped in ether, allowed to dry, and frozen at -70° untiluse.

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)4 100 101 102 103 104 10o 101 1iCELLULAR DNA Cot(moles x sec/liter)

FIG. 1. Hybridization kinetics of AKR viral [3H]DNA probewith bulk mouse cellular DNA. Sheared cellular DNAs (10 mg/ml) were mixed with 1 X 10-3 jug/ml of viral [3H]DNA probe(specific activity, 2 X 107 cpm/.ug) in a "Reactivial" (0.3 ml or1.0 ml capacity). The mixtures were then denatured in 0.12 Mphosphate buffer by heating at 1000 for 5 min, and brought up todesired salt concentrations by the addition of 4.8 M phosphatebuffer. All the incubation mixtures contained 0.5 mM EDTA.Incubation mixtures with low salt concentration (0.3 M Na+)were incubated at 600, whereas those with high salt concentration(1.0M Na+) were incubated at 650. Samples of 50 ul were taken atdifferent time intervals and diluted to 3.0 ml in a final concentra-tion of 0.14 M phosphate buffer + 0.4% NaDodSO4. The extent ofhybridization at each time point was assayed by hydroxy-apatite (Bio-gel HTP, Bio-Rad Laboratory) (16, 18, 22). Un-hybridized molecules were removed from the column with 0.14Mphosphate buffer plus 0.4% NaDodSO4 at 600, while the hybri-dized molecules were removed with the same buffer at 1000.Each fraction eluted from the hydroxyapatite column wasmeasured for absorbance at 260 nm (to measure cell-cell DNAreassociation), and, after addition of 12 ml of "Instagel" (PackardInstrument Co.) to 8 ml of aqueous solution, for radioactivity(to measure probe-cell DNA association). Cot values representequivalent Cot at 0.18 M Na+ (20). (a) *, Association kinetics ofviral [3H]DNA probe with C3H/FgLw mouse cellular DNA;0, C3H/FgLw mouse cellular DNA self-association kinetics.(b) A, Association kinetics of viral [3H] DNA probe with DBA/2Nmouse cellular DNA; *, DBA/2N mouse cellular DNA self-association kinetics. (c) A, Association kinetics of viral [3H]DNAprobe with 129/J mouse cellular DNA; 0, 129/J mouse cellularDNA self-association kinetics.

Five wild Mus were caught in a home 30 miles from NIH.Liver, kidney, thymus, small intestine (opened and washedextensively with Tris-buffered saline), and spleen werepooled.

Virus. The AKR-L1 strain of MLV, originally isolated froma leukemic AKR mouse, has been serially passaged in sec-ondary NIH Swiss mouse embryo cells. The virus purificationprocedure, and the purification of 70S viral [32P]RNA and un-labeled viral RNA have been described (16).

Preparation of Cellular DNA and Synthesis of Single-Stranded, Virus-Specifc [3H]DNA. Cellular DNAs were pre-pared from embryos or tissues by a (sodium dodecyl sulfate)NaDodSO4-Pronase-phenol method (Chattopadhyay et al.,in preparation), sheared at 40,000 lbs./inch2 in a Frenchpressure cell (American Inst. Co.), and filtered through aGA-6 filter (Gelman Inst. Co.) (18). Single-stranded, virus-specific [3H]DNA probe was synthesized in an endogenousRNA-directed DNA polymerase reaction using detergent-lysed, purified AKR virus (19).

Hybridization of the Probe with Cellular DNAs. Initialhybridizations were carried out under conditions identicalwith those described (technique 1) (16). Later hybridizations

U Om IUN IQ.Om BU£LS .IAPm250 750 1250 1750 2250 2750

CELLULAR DNA Cot (moles x sec/liter)FIG. 2., Analysis of association kinetics of [3H]DNA probe

with (a) C3H/FgLw, (b) DBA/2N, and (c) 129/J mouse embryocellular DNAs, and the corresponding cell DNA self-association,by the method of Wetmur and. Davidson (23). The data usedhere are from Fig. 1. The maximum observed [3H]DNA probe-cell DNA and cell DNA-cell DNA hybridizations were normal-ized to 100%. The symbols used here are the same as in Fig. 1.

have used two technical modifications and two new batchesof DNA probe (technique 2). Instead of using multiple sealedampules for reaction mixtures as in technique 1, technique 2uses 'Reactivials' (Pierce Chemical Co.). These vials permitserial sampling from a single reaction mixture without sig-nificant evaporation during long-term incubation. In tech-nique 1, low Cot reactions were carried out with low DNAconcentrations (0.2 mg/ml) and low salt (0.18.M Na+),whereas reaction mixtures for high Cot were carried out withhigh DNA (4.25 mg/ml) and high salt (0.72 M Na+) concen-trations. In technique 2, low Cot reactions were carried out at0.2-0.3,M Na+ and high Cot reactions at 0.8-1.0 M Na+, andall reaction mixtures contained the same concentration of cellDNA (10 mg/ml)..Other technical details. are described inthe legend of Fig. 1. In technique 1, cellular DNAself-hybridized maximally to 90-92%,o and the DNA probehybridized maximally to 80% with AKR-DNA and 50%with NIH-DNA. In technique 2, cellular DNA self-hybridizedmaximally to 94-96%0, and the DNA probe hybridizedmaximally to 88% with AKR-DNA and 69% with NIH-DNA. Cot is the product of nucleic acid absorbancy at 260nm/ml and the hours of incubation, divided by 2. All theCot values mentioned in this paper are the equivalent Cot at0.12M phosphate buffer (0.18 M Na+) (20).

RESULTS

Characterization of the Single-Stranded [3H]DNA Probe.The characteristics of a probe synthesized by the methoddescribed have been discussed (16). Briefly, a representative

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AKR-MLV Sequences in Mouse DNA 3557

TABLE 1. Summary of the hybridization results of the viral probe to the DNAs of the 11 mouse strains

Technique 1 Technique 2

Max. Approx. Max. Approx.hybridi- No. of no. of hybridi- No. of no. of Te5O of

DNA from zation popula- copies of zation popula- copies of probe-cellmouse of the tions of each of the tions of each DNAstrains probe (%) sequences* population* probe (%) sequences population hybrids ATeS0t

High-virusAKR/J 80 2 8-10; 3-4 88 2 7-8; 3-4 83.2 1. 3C3H/FgLw 86 2 7-8; 3-4 82.5 0.7

Low-virusBALB/cN 71 2 7-8; 1-2DBA/2N 72 2 7-8;1-2 81 2 7-8;1-2 82.0 1.003H/HeN 84 2 7-8; 1-2 81.5 2.0C57BL/6J 69 2 6-7; 1-2

Non-virusNIH Swiss 50 1 14 64-69t 1 7 76.0 7.0C57L/J 53 1 15129/J 69 1 7 77.5 5.5NZB/N 63 1 10 75.2 6.3

UnknownWild mouse§ 63 1 7-8 75.2 6.3

Blank spaces indicate not tested.* Determined from reciprocal plot (Fig. 2). The number of copies is the ratio of the slope of each line to the slope of the line described

by unique sequences of cell DNA. In those cases where two lines are described, the estimate of the number in the more abundant popula-tion is a minimum estimate, and may be a gross underestimate.

t Range from three separate experiments.t ATe5O is the difference between the Te50 of self-hybridized cell DNA molecules and that of probe-cell DNA hybrids.§ Tissue cultures were prepared from kidneys of three of the five mice, and no AKR-type MLV was detected in the culture fluids.

viral [3H]DNA probe has a specific activity of 2 X 107cpm/Ag, and is 98% single-stranded, 100% trichloroaceticacid-precipitable, and about 200-400 nucleotides in length.After hybridization with the probe (at a ratio of probe:RNAof 1.5:1), at least 69% of viral 70S RNA sequences are pro-tected against single-strand-specific S-1 nuclease digestion(21), and a saturating amount of 70S RNA protects 87% of theDNA probe sequences.

Hybridization of Probe with Cellular DNAs. Tritiatedsingle-stranded, viral-specific AKR-MLV DNA was incubatedwith a vast excess of unlabeled bulk- cellular DNA from thevarious mouse strains. Association kinetics (22) of the viralDNA probe with embryo DNAs from a representative high-,low-, and non-virus-vielding strain are shown in Fig. 1.Three different kinetic patterns were obtained. The firstpattern is represented by the DNA from the high-virus-yield-ing C3H/FgLw strain (Fig. la); this DNA hybridizes muchfaster with the viral probe than does "unique" (nonreiterated)cellular DNA with itself. At the completion of the reaction,86% of the probe has been hybridized. The second pattern isthat of the low-virus-yielding DBA strain (Fig. lb). This DNAhybridizes initially with the viral probe at the same rate asdoes C3H/FgLw DNA, but the rate decreases (relative toC3H/FgLw DNA) as the hybridization proceeds, and about81% of the viral probe is hybridized at the completion of thereaction. The hybridization of DNA from the non-virus-yielding 129 strain to the viral probe follows a third kineticpattern (Fig. ic). After an initial hybridization rate in-distinguishable from that of the DNA from the high and lowvirus strains, the rate quickly slows and reaches a plateauat about 68% hybridization. This DNA is missing significantly

more viral-specific sequences than is the DNA from the low-virus strain.

If one plots the reassociation kinetics (Fig. 1) as the re-9iprocal of the proportion of unhybridized probe (or cellDNA) (normalized to maximum hybridization equaling100%) against the Cot (Wetmur-Davidson plot) (Fig. 2)(23),.more information can be gained. If all virus-specific se-quences were present in the cellular DNA in equal numbers,the results would describe a single straight line with a slopeproportional to the number of copies of those sequences.. Onthe other hand, if several sets of virus-specific sequences werepresent, each in different proportions, several lines would bedescribed. Using this analysis, we have previously shown thatthe MLV genome in AKR mouse DNA is composed of twodifferent sets of sequences, one of which was estimated tocomprise about 10 copies and the other about four copies perhaploid cellular genome (16). When the hybridization datashown in Fig. 1 are transformed in this manner (Fig. 2), theDNAs from all three strains have a set of viral-specific se-quences that is repeated at least seven to eight times perhaploid genorne. However, in the. C3H/FgLw DNA, thereis an additional population of sequences present in about threeto four copies (Fig. 2a). The DNA from the low-virus-yieldingDBA strain contains only one to two copies of this populationof sequences (Fig. 2b), while the 129-DNA appears to be miss-ing the set of less-abundant sequences altogether (Fig. 2c).The results of hybridization of the viral probe to the DNAs

of the 11 strains tested are presented in Table 1. All 11 strainsfall into the three kinetic patterns described in Figs. 1 and 2,and these three patterns correlated completely with the virus-yielding state of each strain. There was a small but consistent

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80-~ ~ ~ ~ ~ ~ ~ -40 /

20O-

70 80 90 10 60,0.0 0 10TEMPERATURFE, °C

FIG. 3. Thermal elution profile's of the hybrids formed be-tween cellular DNAs of high-, low-, and non-virus-yieldingmouse strains and viral [H]DNA probe. In each case, a 100-uilincubation mixture contained 10 mg/ml of sheared cellularDNA,. 1 X< 10-3 yug/ml of the viral [3HI DNA probe, 0.12 Mphosphate buffer, and 0.5 mM EDTA. After the mixtures weredenatured ( 100° for 5 min. ), they were raised to 0.48 M phosphatebuffer and incubated at 65° for 72-80 hr (Cot = 4-5 X 104).Each incubation mixture was then diluted to 0.14 M phosphatebuffer + 0.4% NaDodSO4 and passed over a hydroxyapatitecolumn (60°, 0.14 M phosphate buffer + 0.4% NaDodSO4).Single-stranded DNA was eluted from the column with 0.14 Mphosphate buffer + 0.4% NaDodSO4, and the temperature ofthe column was then raised in a series of 50 increments. After eachincremeht, the column was washed at the new temperature with8 ml of 0.14 M phosphate buffer + 0.4% NaDodSO4. Eachfraction was measured for absorbance at 260 nm to determine thepercentage of self-hybridization and the Te50 of the self-hybrid-ized molecules. After addition of 12 mld of "Instagel," the radio-activity in each fraction was determined in order to assay theextent of hybridization of the viral [3H]DNA probe to cellularDNA and the elution profile of these hybrids. The melting profileof the hybrids was determined by following the percentage of thetotal A260 units or cpm that bound to the hydroxyapatite at 60°and were eluted at each temperature. (A) Hybrids formed be-tween the [3H]DNA probe and high-virus-yielding C3H/FglwDNA (-), or C3H/FgLw' DNA self-hybridized molecules (0).86% of the total input radioactivity and 95%O of the total inputA260 units were adsorbed to the column at 60°. (B) Hybridsformed between the [3H]DNA probe and low-virus-yieldingDBA/2 DNA (A), or DBA/2 DINA self-hybridized molecules(A). 81% of the total input radioactivity and 96% of the totalinput A260 units were adsorbed to the column at 60°. (C) Hybridsformed between the ['HIDNA probe and non-virus-yielding 129DNA (0), or 129 DNA self-hybridized molecules (0). 69%7 of thetotal input radioactivity and 95%O of the total input A260 unitswere adsorbed to the column at 60'.

difference between the, total amount of the viral probe hy'-bridized by the low-virus strains (81-84%) and by the high-virus strains (86-88%5). Qualitatively, the results obtainedwith techniques 1 and 2 are identical; however, saturationvalues are higher with technique 2.

Analysis of Te5Os of the Hybrids Formned Betibeen the Probeand Cellular DNAs. The thermal melting profiles 'of thehybrids formed between the viral [,3H]DNA probe and theembryo DNAs from a representative high-, low-, and non-virus-yielding strain are shown in Fig. 3. Analysis of thTe50s (midpoint of the thermal eluition profile) of the hybridsformed between the ['H]DNA probe and DNA from variousmouse strains (Table 1) revealed the following facts. (a)The hybrids formed between the DNA from all high-virus-yielding mouse strains and the [3H]DNA probe (Fig. 3A) aresimilar and have the highest Te50 (82.5-83.2°) values of allcell DNA-probe hybrids studied. (b) The Te50s of hybridsformed between the DNA from low-virus-yielding mousestrains and the ['H]DNA probe (Fig. 3B) show Te5Os (81.5-

820) that are close to those of high-virus-yielding strains.(c) The hybrids formed between the DNA from all non-virus-yielding mouse strains and the [%H]DNA probe (Fig. 5C) aresimilar and have the lowest Te5O values (75.2-77.5o).We tentatively interpret these Te5O patterns as indicating

that the two populations of viral sequences identified in thekinetic analyses have different Te5Os, the sequences commonto all strains having the lower value. This could be due to theshared sequences being poorly matched to the probe or havinga lower G: C content, or both.

DNA Piece Size, Heterogeneity of Sequences in the Syn-thesized Probe, and the Rate of Reassociation. Since the rate ofreassociation varies with the square root of the DNA piecesize (23, 24), we have determined the relative piece size of thesynthesized single-stranded ['H]DNA probe and the shearedcellular DNA molecules by alkaline sucrose density sedi-mentation. The probe and cellular DNAs were cosedimentedon a 5-20% alkaline sucrose gradient, and each demonstrateda single peak. The cell DNA peak sedimented slightly fasterthan the probe DNA peak (corresponding to an averagesingle-stranded length for cell DNA of 400 nucleotides, andfor probe DNA of 300 nucleotides). Thus, the probe ['H]DNAprobably associated with cell DNA at a rate slightly slowerthan that of the cellular DNA reassociation. If so, our cal-culations for the copy numbers of viral sequences could beslight underestimates.

Furthermore, the association kinetics may reflect hetero-geneity in the population of sequences in the synthesizedprobe. However, this possibility is unlikely since we performedreassociation experiments with four-fold increases and 4-folddecreases in the amount of AKR and NIH cellular DNA andobtained the identical reassociation both qualitatively andquantitatively (data not shown). Moreover, since the experi-ments were performed with a vast excess of cellular DNA, therate of the association reaction was governed by the cellularDNA concentration. Heterogeneity in the probe would, there-fore, not be reflected in this rate and, consequently, wouldnot perturb our calculations for number of copies. Further-more, when the ['H]DNA probe was hybridized to an excessof 70S RNA and association kinetics were measured, at least70% of the probe reacted as if there were a single populationof sequences, and the rate of reaction corresponded to the rateconstant one would expect with an exact copy of 70S RNA.This experiment does not exclude the presence of a small frac-tion of extremely rare sequences.

Hybridization of the Probe Fraction Remaining Unhy-bridized with Non-Virus-Yielding Mouse Cell DNA. To furtherexamine the possibility that certain probe sequences didnot hybridize to non-virus-yielding mouse cellular DNAdue to lack of those sequences in the latter, we first hy-bridized the probe with NIH Swiss DNA and purified thefractions that did not hybridize in the following manner:NIH cell DNA (7 mg/ml) was mixed with 1 X 10-' /g/ml ofthe probe and boiled for 5 min at 1000 (in 0.18 M Na+ and0.5 mM EDTA). The salt concentration was then raised to0.72 M Na+ (0.48 M phosphate buffer), and the mixture wasincubated for 72 hr at 650 (cellular DNA Cot = 30,000). Theincubation mixture was then diluted to 0.14 M phosphatebuffer (plus 0.4% NaDodSO4), and unhybridized moleculeswere separated by hydroxyapatite chromatography. Underthese conditions, 93% of the cell DNA had reassociated and61% of probe sequences had hybridized to cell DNA. The

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AKR-MLV Sequences in Mouse DNA 3559

unhybridized molecules were purified and concentrated bydialysis and lyophilization, and then rehybridized with freshNIH cellular DNA or AKR cellular DNA. Only 7% of theprobe rehybridized to NIH cellular DNA, but 25% associatedwith AKR cellular DNA. Thus, 68% of the total probe se-quences associated with NIH cellular DNA, whereas 86%of the probe associated with AKR cell DNA. These saturationvalues are in good agreement with those determined after theprobe is hybridized with NIH and AKR cellular DNAseparately. Moreover, the results also confirm that NIH cellDNA lacks about 20% of the probe sequences contained inAKR cell DNA.

Since the use of the virus-specific DNA probe is one stepremoved from the virus itself, we have hybridized AKR andNIH cellular DNAs directly with highly labeled 70S viral[32P]RNA; the extent of the hybridization was assayed withsingle-strand-specific S-1 nuclease from Aspergillus oryzae(21). AKR-DNA hybridized with up to 54%, and NIH-DNAwith up to 31%, of the AKR viral RNA. Therefore, it appearsagain that AKR-DNA contains more viral-specific materialthan does NIH-DNA.

DISCUSSION

These experiments indicate that there are two populationsof virus-specific sequences in the DNA of virus-yieldingstrains; however, there are fewer copies of the less-abundantpopulation in the low-virus-yielding strains than in the high-virus-yielding strains, and a small number of sequences maybe missing in the low-virus-yielding strains. The non-virus-yielding strains lack the less-abundant set of virus-specificsequences altogether. The wild mouse DNA also containedviral sequences, reacting identically to the non-virus-yieldingstrains.

Genetic studies of crosses between virus-yielding and non-virus-yielding mouse strains have shown that the capacity toproduce virus segregates in classical Mendelian patterns(2, 25, 26). From studies of the inheritance of viral geneticmarkers, it was inferred that the most likely explanation ofthese results is that the chromosomal loci detected representviral genomes (26, 27, 5). High-virus-yielding strains (AKR,C3H/FgLw, and C58) contain two or more loci for mouse-tropic virus (2, 25, 27), while the one low-virus-yielding strainanalyzed genetically, BALB/c, contains only one locus formouse-tropic virus (5). The present findings are in full agree-ment with the genetic studies, and further support the hy-pothesis that the virus-inducing loci are viral genomes.

In contrast to the findings reported here, an earlier studyfailed to demonstrate any differences in the amount of virus-specific material between the DNAs of several mouse strains,including NIH and AKR (10, 11). That study used a double-stranded DNA probe from Kirsten MLV, a laboratory strainof virus. As discussed elsewhere (16), there are several theo-retical advantages for the probe used here, the most im-portant being that the single-stranded probe appears to be amuch more faithful copy of the 70S viral RNA than is thedouble-stranded probe (28).A small difference between the amount of the viral DNA

probe that hybridizes to DNA from high- and low-virus mousestrains was consistently observed. RNA from a mouse-tropicvirus isolated from a BALB/c mouse hybridizes somewhat lessefficiently to the DNA probe than does RNA from AKR virus(unpublished observation). It is possible that a small numberof sequences present in the high-virus strains are missing from

the low-virus strains; if so, this could be another factor indetermining the frequency of spontaneous virus release, to-gether with the lower number of complete viral genomes.Another noteworthy result of these experiments is the

finding that all mouse DNAs studied contain seven or morecopies of one portion of the AKR viral genome, regardless ofthe number of copies they contain of the remainder of theviral genome. It is probable that this "more abundant," butincomplete, set represents the same nucleotide sequences inall mouse DNAs. It seems likely that some, or all, of thesecopies represent sequences shared with the xenotropic murineleukemia viruses (6), since these viruses appear to be presentin all mouse strains and are known to have several proteinsin common with the mouse-tropic AKR-type viruses (6, 4).

We thank Dr. Ernest K. Manders for his help and participationin one of the experiments. We are greatly indebted to Drs. J.Olpin and R. Gilden (Flow Laboratories, Rockville, Md.) fortheir help in virus purification and to Dr. Edward M. Scolnickfor the generous gift of S-1 nuclease and also for helpful advice.We gratefully acknowledge the help of Ms. Janet Hauser. Thisproject was supported in part by the Virus Cancer Program of theNational Cancer Institute.

1. Rowe, W. P. & Pincus, T. (1972) J. Exp. Med. 135, 429-436.2. Rowe, W. P. (1972) J. Exp. Med. 136, 1272-1285.3. Levy, J. A. & Pincus, T. (1970) Science 170, 326-327.4. Todaro, G. J., Arnstein, P., Parks, W. P., Lennette, E. H. &

Huebner, R. J. (1973) Proc. Nat. Acad. Sci. USA 70, 859-862.

5. Aaronson, S. A. & Stephenson, J. R. (1973) Proc. Nat.Acad. Sci. USA 70, 2055-2058.

6. Levy, J. A. (1973) Science 182, 1151-1153.7. Rowe, W. P., Hartley, J. W., Lander, M. R., Pugh, W. E. &

Teich, N. (1971) Virology 46, 866-876.8. Lowy, D. R., Rowe, W. P., Teich, N. & Hartley, J. W.

(1971) Science 174, 155-156.9. Aaronson, S. A., Todaro, G. J. & Scolnick, E. AI. (1971)

Science 174, 157-159.10. Gelb, L. D., Aaronson, S. A. & Martin, M. A. (1971) Science

172, 1353-1355.11. Gelb, L. D., Milstien, J. B., Martin, M. A. & Aaronson, S. A.

(1973) Nature New Biol. 244, 76-79.12. Varmus, H. E., Weiss, R. A., Friis, R. It., Levinson, W. &

Bishop, J. M. (1972) Proc. Nat. Acad. Sci. USA 69, 20-24.13. Baluda, M. A. (1972) Proc. Nat. Acad. Sci. USA 69, 576-

580.14. Neiman, P. (1973) Virology 53, 196-204.15. Varmus, H. E., Bishop, J. Al. & Vogt, P. K. (1973) J. Mol.

Biol. 74, 613-636.16. Chattopadhyay, S. K., Lowy, l). R., Teich, N. M., Levine,

A. S. & Rowe, W. P. (1974) Proc. Nat. Acad. Sci. USA 71,167-171.

17. Scolnick, E. M., Parks, W., Kawakami, T., Kohne, D.,Okabe, H., Gilden, R. & Hatanaka, AI. (1974) J. Virol. 13,363-369.

18. Kohne, D. E. (1968) Biophys. J. 8, 1104-1118.19. Benveniste, R. E. & Scolnick, E. MI. (1973) Virology 51,

370-382.20. Britten, R. J. (1969) in Problems in Biology: RNA in De-

velopment, ed. E. W. Hanly (Univ. of Utah Press, Salt LakeCity), pp. 187-216.

21. Sutton, W. D. (1971) Biochim. Biophys. Acta 240, 522-531.22. Britten, R. J. & Kohne, D. E. (1968) Science 161, 529-540.23. Wetmur, J. G. & Davidson, N. (1968) J. Mol. Biol. 31,

349-370.24. Kohne, D. E. (1970) Quart. Rev. Biophys. 3, 327-375.25. Rowe, W. P. (1973) Cancer Res. 33, 3061-3068.26. Rowe, W. P. & Hartley, J. W. (1972) J. Exp. AMed. 136,

1286-1301.27. Stephenson, J. It. & Aaronson, S. A. (1973) Science 180,

865-866.28. Garapin, A. C., Varmus, H. E., Faras, A. J., Levinson, W. E.

& Bishop, J. M. (1973) Virology 52, 264-274.

Proc. Nat. Acad. Sci. USA 71 (1974)

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