New Evidence for Genome-Wide Duplications at the Origin of Vertebrates Using an Amphioxus Gene Set and Completed Animal Genomes

Table 1A.

Comparison of Gene Copy Number Per Single Copy CD/CDY Orthologous Group Between Amphioxus and Ciona, Mouse, or Human
Amphioxus (A)
Ciona (C)
Mouse (M)
Human (H)
N
G
N/G
N
G
N/G
N
G
N/G
N
G
N/G
All 1248 773 1.6 2685 1679 1.6 7384 2671 2.8 10209 3044 3.4
(=1) 548 548 1 1133 1133 1 1173 1173 1 1156 1156 1
(>1) 700 225 3.1 1552 546 2.8 6211 1498 4.1 9053 1888 4.8
(≥1)A:(≥1)C 945 546 1.7 1094 546 2
1A:1C 237 237 1 237 237 1
1A:(>1)C 128 128 1 330 128 2.5
(>1)A:1C 197 75 2.6 75 75 1
(>1)A:(>1)C 383 106 3.6 452 106 4.2
(≥1)A:(≥1)M 1115 676 1.6 2427 676 3.6
1A:1M 192 192 1 192 192 1
1A:(>1)M 277 277 1 1114 277 4
(>)A:1M 109 46 2.4 46 46 1
(>1)A:(>1)M 537 161 3.3 1075 161 6.7
(≥1)A:(≥1)H 1164 711 1.6 2917 711 4.2
1A:1H 180 180 1 180 180 1
1A:(>1)H 319 319 1 1465 319 4.6
(>1)A:1H 106 46 2.3 46 46 1
(>1)A:(>1)H
559
166
3.4
1226
166
7.4

  • The number N of genes assigned into G groups (single copy CD/CDY) and the corresponding copy ratio N/G is shown for various cases. (All) The number of all groups containing genes from a specific organism; (>1) Groups have more than one gene from a specific organism. The fourth (light gray), the fifth (dark gray), and the sixth row (light gray) each compare various cases for only those groups in common between amphioxus (A) and ciona or amphioxus and mouse (M) or amphioxus and human (H).

This Article

  1. Genome Res. 13: 1056-1066

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