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Accession: PRJNA675888 ID: 675888

Nanopore-based assembly of many drosophilid genomes

This work is a collaborative project aiming to broaden the scope of genomic resources for studying evolution in the model group Drosophilidae (fruit flies). More...
AccessionPRJNA675888
Data TypeGenome sequencing and assembly
ScopeMultispecies
Publications
  • BaiĆ£o GC et al., "Multiple introgressions shape mitochondrial evolutionary history in Drosophila paulistorum and the Drosophila willistoni group.", Mol Phylogenet Evol, 2023 Mar;180:107683
  • Kim BY et al., "Highly contiguous assemblies of 101 drosophilid genomes.", Elife, 2021 Jul 19;10
Grants
  • "A comparative population genomic approach for high-resolution inference of natural selection in fruit flies" (Grant ID F32 GM135998, National Institute of General Medical Sciences)
  • "The prevalence of genetic introgression in speciation" (Grant ID R01 GM121750, National Institute of General Medical Sciences)
  • "Genomics of rapid adaptation in the lab and in the wild" (Grant ID R35 GM118165, National Institute of General Medical Sciences)
  • "Co-evolutionary Genetics of Host-Parasite Interactions" (Grant ID R35 GM119816, National Institute of General Medical Sciences)
  • "Molecular Genetics of Evolutionary Innovations" (Grant ID R35 GM122592, National Institute of General Medical Sciences)
  • "Advanced sequencing as a novel diagnostic tool to discover strain-level variation and function of mucosal-adherent bacteria contributing to IBD" (Grant ID K01 DK119582, National Institute of Diabetes and Digestive and Kidney Diseases)
SubmissionRegistration date: 10-Nov-2020
Stanford University
RelevanceEvolution
Project Data:
Resource NameNumber
of Links
Sequence data
Nucleotide (WGS master)101
SRA Experiments164
Publications
PubMed2
PMC1
Other datasets
BioSample103
Assembly101
Assembly details:
Assembly levelNumber of Assemblies
16
85
101
AssemblyLevelWGSBioSampleIsolateTaxonomy
GCA_018150985.1ContigJAECWU000000000SAMN16729672
Sapporo
GCA_018903765.1ScaffoldJAEIGO000000000SAMN16729648
mont_up-71
GCA_018150905.1ContigJAECWS000000000SAMN16729675
R42
GCA_018152915.1ContigJAECXQ000000000SAMN16729623
15010-0951.00
GCA_018148915.1ContigJAECYH000000000SAMN16729696
14024-0371.13
GCA_018151165.1ContigJAECWX000000000SAMN16729669
15182-2261.03
GCA_018148935.1ContigJAECYG000000000SAMN16729608
14023-0361.10
GCA_018153845.1ContigJAECYF000000000SAMN16729609
14024-0381.04
GCA_018151655.1ContigJAECXF000000000SAMN16729647
YAK3_mont-66
GCA_018903735.1ContigJAEIGM000000000SAMN16729652
15181-2181.03
GCA_018152295.1ContigJAECXJ000000000SAMN16729632
KB866
GCA_018152125.1ContigJAECXC000000000SAMN16729653
15182-2291.00
GCA_018152505.1ContigJAECXL000000000SAMN16729630
14027-0461.03
GCA_018150345.1ContigJAECWI000000000SAMN16729691
14030-0741.00
GCA_018150545.1ContigJAECWL000000000SAMN16729683
14024-0432.00
GCA_018904525.1ScaffoldJAEIGZ000000000SAMN16729697
14021-0224.01
GCA_018153835.1ContigJAECYE000000000SAMN16729698
14026-0451.02
GCA_018152265.1ContigJAECXK000000000SAMN16729631
14025-0441.05
GCA_018901825.1ContigJAEIFK000000000SAMN16729688
fst01
GCA_018153365.1ContigJAECXW000000000SAMN16729615
14029-0011.01
GCA_018153295.1ContigJAECXY000000000SAMN16729613
15287-2541.00
GCA_018152165.1ContigJAECXE000000000SAMN16729649
kari17
GCA_018153375.1ContigJAECXZ000000000SAMN16729612
15111.1731.12
GCA_018903935.1ContigJAEIFP000000000SAMN16729645
jp01i
GCA_018152175.1ContigJAECXH000000000SAMN16729634
14028-0671.01
GCA_018152535.1ContigJAECXM000000000SAMN16729629
14028-0561.14
GCA_018153305.1ContigJAECXX000000000SAMN16729614
SaPa58
GCA_018903485.1ScaffoldJAEIGF000000000SAMN16729673
1240J8
GCA_018153275.1ContigJAECXU000000000SAMN16729617
palQ-isoG
GCA_018153235.1ContigJAECXV000000000SAMN16729616
mal0-isoC
GCA_018904475.1ScaffoldJAEIGY000000000SAMN16729699
14021-0241.01
GCA_018904365.1ScaffoldJAEIGS000000000SAMN16729610
14021-0231.36
GCA_018153725.1ContigJAECYD000000000SAMN16729700
15081-1352.22
GCA_018904325.1ContigJAEIFX000000000SAMN16729622
DKPHETFM01
GCA_018903615.1ScaffoldJAEIGI000000000SAMN16729666
14041-0831.00
GCA_018151105.1ContigJAECWW000000000SAMN16729671
BZ-5 IFL
GCA_018150695.1ContigJAECWM000000000SAMN16729682
MT-04
GCA_018153455.1ContigJAECYA000000000SAMN16729611
par2-isoB
GCA_018151315.1ContigJAECWZ000000000SAMN16729664
14030-0771.12
GCA_018152135.1ContigJAECXG000000000SAMN16729646
14030-0771.06
GCA_018904465.1ContigJAEIGX000000000SAMN16729701
14011-0111.01
GCA_018151275.1ContigJAECWY000000000SAMN16729667
14045-0901.02
GCA_018150935.1ContigJAECWR000000000SAMN16729676
iso-A1 I-9
GCA_018153145.1ContigJAECXT000000000SAMN16729618
VT04-31
GCA_018153035.1ContigJAECXR000000000SAMN16729619
Wau 125
GCA_018904455.1ContigJAEIGW000000000SAMN16729702
14011-0121.94
GCA_018150725.1ContigJAECWN000000000SAMN16729680
quad-TMU
GCA_018903745.1ContigJAEIGN000000000SAMN16729650
kari30
GCA_018150835.1ContigJAECWQ000000000SAMN16729677
ISZ-isoB I-10
GCA_018152115.1ContigJAECXI000000000SAMN16729633
14029-0021.01
GCA_018153105.1ContigJAECXS000000000SAMN16729620
EH091 iso-C L_3
GCA_018903575.1ContigJAEIGH000000000SAMN16729668
14045-0911.00
GCA_018904445.1ScaffoldJAEIGV000000000SAMN16729703
14021-0248.01
GCA_018904415.1ScaffoldJAEIGU000000000SAMN16729704
14021-0251.006
GCA_018150735.1ContigJAECWO000000000SAMN16729679
14030-0761.01
GCA_018901795.1ContigJAEIFG000000000SAMN16729694
st01m
GCA_018904355.1ContigJAEIFY000000000SAMN16729621
DKPTOMS02
GCA_018150375.1ContigJAECWJ000000000SAMN16729685
14043-0871.01
GCA_018903505.1ContigJAEIGG000000000SAMN16729670
Ksnacht
GCA_018150325.1ContigJAECWG000000000SAMN16729695
L1
GCA_018150745.1ContigJAECWP000000000SAMN16729678
14030-0791.01
GCA_018152695.1ContigJAECXN000000000SAMN16729628
IR98-3 E-12201
GCA_018903625.1ContigJAEIGJ000000000SAMN16729662
273.3
GCA_018903635.1ContigJAEIGK000000000SAMN16729661
CT02
GCA_018151095.1ContigJAECWV000000000SAMN16744625
14028-0691.9
GCA_018150885.1ContigJAECWT000000000SAMN16729674
Divibare2
GCA_018151085.1ContigJAECWH000000000SAMN16729692
14030-0801.00
GCA_018150405.1ContigJAECWK000000000SAMN16729684
CKM15-L1
GCA_018153695.1ContigJAECYC000000000SAMN16729705
15010-1051.87
GCA_018153465.1ContigJAECYB000000000SAMN16729706
14030-0811.00
GCA_018903445.1ScaffoldJAEIGE000000000SAMN16729681
14030-0811.17
GCA_018904385.1ContigJAEIGT000000000SAMN16729707
14021-0261.01
GCA_018903435.1ContigJAEIFJ000000000SAMN16729689
nc01v
GCA_018904275.1ScaffoldJAEIGQ000000000SAMN16729635
Guizhou062018LC
GCA_018904265.1ContigJAEIFV000000000SAMN16729637
UCKTSapporo052019LC
GCA_018904285.1ContigJAEIFW000000000SAMN16729636
UCKTSapporo052019LM
GCA_018904225.1ContigJAEIFT000000000SAMN16729639
MMSapporo052014LM
GCA_018904235.1ContigJAEIFU000000000SAMN16729638
UCILTSSapporo052019LS
GCA_018901835.1ContigJAEIFL000000000SAMN16729627
TMU-2019
GCA_018152825.1ContigJAECXO000000000SAMN16729625
iso-CA-L1
GCA_018904305.1ContigJAEIGR000000000SAMN16729626
iso-CA-L1
GCA_018152965.1ContigJAECXP000000000SAMN16729624
iso-CA-L1
GCA_018151435.1ContigJAECXB000000000SAMN16729659
BS06
GCA_018904165.1ContigJAEIFS000000000SAMN16729640
jd01cam
GCA_018903675.1ContigJAEIFN000000000SAMN16729656
jd01cap
GCA_018903715.1ScaffoldJAEIGL000000000SAMN16729654
jd01d
GCA_018903695.1ContigJAEIFO000000000SAMN16729655
jd01gab
GCA_018904095.1ScaffoldJAEIGP000000000SAMN16729642
jd01ghe
GCA_018904605.1ScaffoldJAEIHB000000000SAMN16729663
BS02
GCA_018904595.1ScaffoldJAEIHA000000000SAMN16729665
RCR04
GCA_018903395.1ScaffoldJAEIGC000000000SAMN16729687
16GNV01
GCA_018159335.1ContigJAECYI000000000SAMN16729658
CDD18
GCA_018151445.1ContigJAECXD000000000SAMN16729651
18BSZ10
GCA_018901885.1ContigJAEIFM000000000SAMN16729657
jd01k
GCA_018901815.1ContigJAEIFI000000000SAMN16729690
jd01l
GCA_018903425.1ScaffoldJAEIGD000000000SAMN16729686
st01n
GCA_018904035.1ContigJAEIFZ000000000SAMN16729644
jd01o
GCA_018901805.1ContigJAEIFH000000000SAMN16729693
st01t
GCA_018904105.1ContigJAEIFR000000000SAMN16729641
jd01t
GCA_018151455.1ContigJAECXA000000000SAMN16729660
car7-4
GCA_018904025.1ContigJAEIFQ000000000SAMN16729643
jd01v
SRA Data Details
ParameterValue
Data volume, Gbases1,831
Data volume, Tbytes1.26
Related RefSeq Project
PRJNA1159848 : Drosophila tropicalis RefSeq BioProject
Related Project Category: RefseqGenbank
PRJNA728747 : Refseq

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