SAMN29174328
External Id
G10K
INSDC center name
2022-06-17T00:00:00Z
INSDC first public
2023-08-22T16:41:20.707Z
INSDC last update
SRS18690681
INSDC secondary accession
live
INSDC status
Model organism or animal
NCBI submission model
Model.organism.animal.1.0
NCBI submission package
SRS18690681
SRA accession
Frozen Zoo, San Diego Zoo
biomaterial_provider
1966
birth_date
India
birth_location
fibroblast
cell_type
San Diego Zoo
collected_by
2016
collection_date
The Indian elephant is one of the three subspecies of the Asian Elephant. It has been classified as Endangered on the IUCN realist since 1986 due to habitat loss and environmental degradation mainly caused by human activities. This assembly has been produced as part of the G10K-VGP Project, and supported by Virpi Lummaa (Professor, Ecology and Evolutionary Biology, university of Turku, Finland), Camila Mazzoni (group leader at the Leibniz Institute for Zoo and Wildlife Research, Berlin, Germany), and by Colossal Biosciences. Work was done in collaboration with Sara Ord, Eriona Hysolli, and Larissa Souza Arantes. Skin tissue was collected from a 50 years old adult male at the San Diego zoo, California (SB-218, and GAN # 26734787; ZIMS/Species 360) and fibroblast cells were cultured by the Frozen Zoo. The sample was sequenced using the VGP 2.0 individual pipeline at the Rockefeller University Vertebrate Genome Lab, led by Olivier Fedrigo and Erich Jarvis. The primary haplotype contigs were generated from PacBio Hifi reads, scaffolded with Bionano optical maps, and Arima HiC reads. Genome was assembled by Diego De Panis. Manual curation of chromosomes and other genomic features was conducted by Nadolina Brajuka and led by Giulio Formenti. The raw data and assembly are currently under a G10K-VGP publication embargo until removed from this description, following the G10K data use policy at the following URL: https://genome10k.soe.ucsc.edu/about/data_use_policy
description
adult
dev_stage
USA: San Diego Zoo
geo_loc_name
mEleMax1
isolate
32.7353 N 117.1490 W
lat_lon
Elephas maximus indicus
http://purl.obolibrary.org/obo/NCBITaxon_99487
organism
male
sex
indicus
sub_species
fibroblast cells from skin
tissue
Model organism or animal sample from Elephas maximus indicus (Indian elephant) for VGP reference genome, mEleMax1
title
frozen cell pellets, -80C
treatment