SELECTED PUBLICATIONS OF MARC W. ALLARD

Allard, M.W., D. Young, and Y. Huyen. 1995. Detecting Dinosaur DNA. Science 268:1192.

Young, D., M. W. Allard, and Y. Huyen. 1995. Testing the validity of the cytochrome b sequence from Cretaceous period bone fragments as dinosaur DNA. Cladistics, 11:199-210.

#NEXUS

BEGIN DATA;

DIMENSIONS NTAX= 25 NCHAR= 133 ;

FORMAT MISSING=? GAP=- MATCHCHAR=. DATATYPE=DNA EQUATE="A=G C=T";

OPTIONS IGNORE=UNINFORM ;

Taxa abbreviations are as follows: ACCESSION NUMBER (GENBANK)

DINOSAUR SEQUENCES -

1.2-18, 1.2-37, 1.2-61, 1.20-61, 1.3-37, 1.31-44 and 1.4-37 FROM BONE FRAGMENT 1

2.5-37 and 2.6-37 FROM BONE FRAGMENT 2

Antilocapra americana (Aameri) X56286

Balaenoptera bonaerensis (Bbonae) X75581

Bos javanicus (Bjavan) D34636

Cyprinus carpio (Ccarpi) X61010

Capra hircus (Chircu) X56289

Chiroderma improvisum (Cimpro) L28938

Cervus nippon (Cnippo) D32192

Chiroderma villosum (Cvillo) L28943

Epimachus fastuosus (Efastu) X74253

Galeocerdo cuvier (Gcuvie) L08034

Homo sapiens (Hsapie)-R&C T24070

Lophortyx gambelii (Lgambe) L08382

Lophura nychthemera (Lnycht) L08380

Numida meleagris (Nmelea) L08383

Odocoileus hemionus (Ohemio) X56291

Opisthocomus hoazin (Ohoazi) U09258

Dinosaur Sequences:

AUTHORS Woodward,S.R., Weyand,N.J. and Bunnell,M.

TITLE DNA Sequence from Cretaceous Period Bone Fragments

JOURNAL Science 266, 1229-1232 (1994)

AUTHORS Irwin,D.M., Kocher,T.D. and Wilson,A.C.

TITLE Evolution of the cytochrome b gene of mammals

JOURNAL J. Mol. Evol. 32, 128-144 (1991)

AUTHORS Arnason,U. and Gullberg,A.

TITLE Relationship of baleen whales established by cytochrome b gene

sequence comparison

JOURNAL Nature 367, 726-728 (1994)

AUTHORS Kikkawa,Y., Amano,T. and Suzuki,H.

TITLE Analysis of genetic diversity of domestic cattle in east and

south-east Asia in terms of variations in restriction sites and

sequences of mitochondrial DNA

JOURNAL Unpublished (1994)

AUTHORS Chang,Y.S., Huang,F.L. and Lo,T.B.

TITLE The complete nucleotide sequence and gene organization of carp

(Cyprinus carpio) mitochondrial genome

JOURNAL J. Mol. Evol. 38, 138-155 (1994)

AUTHORS Baker,R.J., Taddei,V.A., Hudgeons,J.L. and Van Den Bussche,R.A.

TITLE Systematic relationships within Chiroderma (Chiroptera:

Phyllostomidae) based on cytochrome b sequence variation

JOURNAL J. Mammal. 75, 321-327 (1994)

AUTHORS Chikuni,K., Mori,Y., Tabata,T., Saito,M., Monma,M. and

Kosugiyama,M.

TITLE Molecular phylogeny based on the kappa-casein and cytochrome b

sequences in the Ruminantia

JOURNAL Unpublished (1994)

AUTHORS Helm-Bychowski,K. and Cracraft,J.

TITLE Recovering phylogenetic signal from DNA sequences: relationships

within the corvine assemblage (Class Aves) as inferred from

complete sequences of the mtDNA cytochrome b gene

JOURNAL Mol. Biol. Evol. 10, 1196-1214 (1993)

AUTHORS Martin,A.P. and Palumbi,S.R.

TITLE Protein evolution in different cellular environments: cytochrome b

in sharks and mammals

JOURNAL Mol. Biol. Evol. 10, 873-891 (1993)

AUTHORS Soares,M.B.

JOURNAL Unpublished (1994)

STANDARD full automatic

COMMENT Contact: Bento Soares

Columbia University

Department of Psychiatry,722 W 168th Street, Unit #41, New York,NY 10032

Tel: 2129602313

Fax: 2127813577

Email: cuc@cuccfa.ccc.columbia.edu

AUTHORS Kornegay,J.R., Kocher,T.D., Williams,L.A. and Wilson,A.C.

TITLE Pathways of lysozyme evolution inferred from the sequences of

cytochrome b in birds

JOURNAL J. Mol. Evol. 37, 367-379 (1993)

AUTHORS Avise,J.C., Nelson,W.S. and Sibley,C.G.

TITLE Why one-kilobase sequences from mitochondrial DNA fail to solve the

Hoatzin phylogenetic enigma

JOURNAL Mol. Phylogenet. Evol. 3, 175-184 (1994)]

JUSTIFICATION - The reading frame is shifted due to the presence of the C at

position 54 and produces nonsense amino acids.]

MATRIX

[ 000000000100000000020000000003000000000400000000050000000006000000000700000000080000000009000000000*000000000100000000020000000003000000]

1.2-18 ??????????????ATTCTCATTCTATTCTTTATTCCTGTACTCCGCACATCCAAACAACATAGCATAATATTCCACCCATTGAGCCAATTCCTATCCTTATTCATAGTCACCGAACTTTTTACACTCACA??

1.2-37 ???????????TCAATTCTCATTCTCTTCCTTATCCCTTTACTCCACAAATCCAAACAACGAACCATAACATTCCACCCATTGTGTCAATTCCTATACTGATTTTTAG?????????????????????????

1.2-61 CCCTTCTACTATTCATCCTCATTCTATTCGCAATTCCTATACTCCACATATCCAAACAACAAAGCATAATATTTCACCCATTGAGTCAATTCCTATCCTTATTCTTAGTCCCGGAACCTTTTACACTAACC??

1.20-61 ?????????????????CTTATTCTATTCGTTATTCCTGTACTCCACATATCCAAATAACAAAGCATTATATTTCACCCATTGAGTCAATTCCTATCCTGATTCCTAGTCCCCGAACCTTT????????????

1.3-37 CCCTTGTATTATCCATTTTCATTCTATTCGTTATTCCTGTACTTCACACGTCTAAACAACAAACCATAATATTCCAACCATTGAGTCAGTGCCTATTCTGAATCTTAATGGCCGAACTATTTACACTCACATG

1.31-44 ?????????????????CTCATTCTATTTGTTATTCCTGTACTCCACACATCCAGACAGCAAAGCATAATATTCCACCCATTGCGTCAATTCCTAACCTGATTCCTAGTCCCAGACCCTTTTA??????????

1.4-37 CCCTTCGATTATCCATTCTCATTCTATTCGTTGTTCCTGCCCTCCACACATCGAAACAACAAAGCATCATATTCCGCCCATTGAGTCAATTTCAATCCTGAATCTTAGTCACCGAACGT??????????????

2.5-37 CCCTTCTACTATCCAATTTCATCCTATTCGTAATTCCCATACTTCACACATGTAAACAACAAGGCATAATATTCGGTCCACTGGGCCAATTCCTTTCTTGGCTCCTAGT????????????????????????

2.6-37 ?????????TATCTATTCTTATCCTGTTCGTATTTCCTGCACTTCACACATGTAAACAACAAAGCATAATATTCGGCCCACTAGGTCAATTC?????????????????????????????????????????

[ 000000000100000000020000000003000000000400000000050000000006000000000700000000080000000009000000000*000000000100000000020000000003000000]

Aameri CACTAGTCCTCTCTATTCTCATCCTTATCTTTATACCCCTGCTCCACACATCCAAACAGCGAAGCATAATATTCCGACCATTCAGCCAATGCTTATTCTGAATCCTAGTAGCAGACCTACTCACCCTAACATG

Bbonae CCCTATTACTCTCAATCCTAATCCTAGCCTTCATCCCAATACTCCACACATCCAAACAACGAAGCATAATATTCCGACCCTTTAGCCAATTTCTATTCTGAGTACTAGTCGCAGACCTATTAACCCTAACATG

Bjavan CCCTAGCTTTCTCTATCCTAATCCTCGCCCTCATTCCCCTACTACACACCTCTAAACAACGAAGCATAATATTCCGACCACTAAGCCAATGCCTATTTTGAATTTTAATAGCAGATCTACTAACACTCACATG

Ccarpi CACTCCTATTCTCCATTCTGGTATTAATAGTAGTACCACTACTACACACCTCAAAACAACGAGGACTAACATTCCGCCCCATCACCCAATTCCTATTCTGAACCCTAGTAGCGGACATAATTATCCTAACATG

Chircu CCCTAGTCCTCTCAATCCTAATCTTAGTACTTGTACCCTTCCTCCACACATCTAAACAACGAAGCATAATATTCCGCCCAATCAGCCAATGCATATTCTGAATCCTGGTAGCAGATCTATTAACACTCACATG

Cimpro CCCTAGTAATATCCATCCTAATCCTAGCTATTGTTCCAACCCTCCATATATCCAAACAACGAAGCATAATATTCCGCCCCCTCAGCCAATGCTTATTTTGACTCCTAGTAGCAGTTCTATTCACACTAACATG

Cnippo CCCTAGTCTCATCCATCCTAATCTTGATTCTCATGCCTCTTCTTCACACGTCCAAACAACGCAGCATGATATTCCGACCATTCAGCCAATGCCTATTCTGAATCTTAGTAGCAGACCTACTAACACTCACATG

Cvillo CCCTAGTAATATCCATCCTAATCCTAGCTATTGTTCCAATCCTCCACATATCCAAACAACGAAGCATAATATTCCGTCCCCTCAGCCAATGCTTATTCTGACTCCTAGTAGCAGTTCTATTCACACTAACATG

Efastu CCCTAGCTGCTTCCGTCCTAATCCTATTCCTTATTCCTCTGCTCCACACATCCAAACAACGATCAATAACCTTCCGACCCCTATCGCAAATCCTGTTCTGAATCCTAGTAACTAACCTACTAATCCTGACATG

Gcuvie CCCTCCTATTTTCTATTCTTATCCTTATATTAGTTCCTCTCCTTCAAACCTCTAAACAACGAAGTACCATCTTCCGACCAATAACCCAAATCCTCTTCTGATTCCTTGTAGCTAACTCAATCATCCTAACTTG

Hsapie CCCTATTACTATCCATCCTCATCCTAGCAATAATCCCCATCCTCCATATATCCAAACAACAAAGCATAATATTTCGCCCACTAAGCCAATCACTTTATTGACTCCTAGCCGCAAANCTCCTCATACTAACCTG

Lgambe CCCTAGCAGCCTCAGTGCTCATCCTCCTTCTAATCCCATTCCTCCACAAATCCAAACAACGAACCATAACATTCCGTCCCCTGTCTCAAATCCTATTCTGACTTCTAGCTGCCAACCTACTAATCCTCACCTG

Lnycht CCCTAGCAGCCTCAGTACTCATCCTCCTTCTCATCCCTTTCCTTCACAAATCTAAACAACGAACCATAACCTTTCGCCCACTTTCCCAAACCCTATTTTGATTCCTAGTCGCTAACCTCCTCATCCTAACCTG

Nmelea CACTAGCAGCCTCCGTACTTATCCTCCTCCTAATCCCATTCCTCCACAAATCCAAACAACGAACCATAACATTCCGCCCATTCTCCCAACTTCTATTCTGACTCCTAGTAGCCAACCTTCTCATTCTAACCTG

Ohemio CCCTAGTCCTCTCCATCCTAATCCTCGTCCTTATACCCCTACTTCACACATCCAAACAACGAAGTATAATATTCCGACCATTCAGCCAATGCCTGTTTTGAATTTTAGTAGCGCACCTACTAACACTCACATG

Ohoazi CCCTCGCCGCTTCCATACTCATCCTATTCCTAGTCCCCTTCCTCCACAAGACTAAACAACGCACTATGGCCTTCCGGCCCCTATCCCAACTTTTATTCTGAACCCTCGTCGTTAACCTCTTCATCCTAACATG