Xenopus Genome Project

Summary of XENLA7.1 Assembly
(The final version of shotgun assembly that we used for chromosome scaffolding)
Total number of scaffolds	413,763
Total number of contigs	648,787
Total length of scaffolds (Mb)	2723.8
Total length of contigs (Mb)	2449.7
Percentage of gaps (%)	10.1
N/L50 of scaffolds	648/1.1 Mb
N/L50 of contigs	37,644/19.3 kb
Number of scaffolds longer than 50 kb	4,297
% main genome in scaffolds longer than 50 kb	94.70%

Genome
X. laevis(v9.1)									X. tropicalis(v10.0)
L chromosome			S chromosome			L + S chromosome			Chromosome
Chr.	Length (Mb)	Gene Count	Chr.	Length (Mb)	Gene Count	Chr.	Length (Mb)	Gene Count	Chr.	Length (Mb)	Gene Count
Chr1L	197	3,649	Chr1S	160	2,366	Chr1L+S	357	6,015	Chr1	217	3,469
Chr2L	161	2,759	Chr2S	142	2,297	Chr2L+S	303	5,056	Chr2	181	3,529
Chr3L	129	2,922	Chr3S	107	1,854	Chr3L+S	236	4,776	Chr3	154	4,219
Chr4L	130	2,363	Chr4S	109	1,768	Chr4L+S	238	4,131	Chr4	154	2,901
Chr5L	142	2,262	Chr5S	120	1,751	Chr5L+S	262	4,013	Chr5	164	2,677
Chr6L	138	2,095	Chr6S	113	1,489	Chr6L+S	252	3,584	Chr6	154	2,298
Chr7L	113	2,294	Chr7S	79	1,413	Chr7L+S	192	3,707	Chr7	134	2,570
Chr8L	107	2,716	Chr8S	86	1,953	Chr8L+S	193	4,669	Chr8	147	3,675
Chr9_10L	107	2,616	Chr9_10S	94	2,057	Chr9_10L+S	201	4,673	Chr9	91	2,055
Chr9_10L	107	2,616	Chr9_10S	94	2,057	Chr9_10L+S	201	4,673	Chr10	52	1,452
Total	1,222	23,676	Total	1,010	16,948	Total	2,233	40,624	Total	1,449	28,845

XenOrtho DB

XenOrtho DB (Xenopus Ortholog DataBase) is a database in which ortholog genes of Xenopus tropicalis, Xenopus laevis and humans are listed. It was produced by Dr. Fukui (Faculty of Science and Engineering, Chuo Univ.) and Dr. Igawa (Hiroshima Univ. Amphibian Research Center) through collaboration between the Xenopus Community in Japan (XCIJ) and National Bio-Resource Project (NBRP). When a study using XenOrthoDB is published as a research paper, please acknowledge Dr. Fukui, Dr. Igawa, XCIJ, and NBRP.

African clawed frog (right) and Western clawed frog (left)
Copyright: 2016 Shuji Takahashi @ Hiroshima University

African clawed frog chromosomes

"Fossil" DNA sequences found only in the S subgenome (chromosomes) of Xenopus laevis emit a red glow employing the FISH method. The nine S chromosomes here clearly possess a larger number of red regions, believed to have derived from ancestral species S. (Chromosome 9, at bottom right, is represented as "9_10," as it corresponds to the fusion of ancestral chromosomes corresponding to chromosomes 9 and 10 in Xenopus tropicalis).