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Accession: PRJNA660495 ID: 660495

Whole genome sequencing and assembly of denitrifying soil isolates

Whole genome sequencing of denitrifying bacteria isolated from soils in and around Urbana, IL from 2018-2019. More...
AccessionPRJNA660495
Data TypeGenome sequencing and assembly
ScopeMultispecies
Publications
  • Gowda K et al., "Genomic structure predicts metabolite dynamics in microbial communities.", Cell, 2022 Feb 3;185(3):530-546.e25
  • Published online: Gowda K et al., "Genomic structure predicts metabolite dynamics in microbial communities", Cell, 2022;185(3):530-546
Grants
  • "Simons Investigator" (Grant ID 597491, Simons Foundation)
  • "Center for the Physics of Living Cells" (Grant ID 0822613, National Science Foundation)
  • "Center for the Physics of Living Cells" (Grant ID 1430124, National Science Foundation)
  • "Studying Complex Systems Postdoctoral Fellowship" (Grant ID 220020499, James S. McDonnell Foundation)
SubmissionRegistration date: 31-Aug-2020
University of Chicago
Related Resources
RelevanceEnvironmental
Project Data:
Resource NameNumber
of Links
Sequence data
Nucleotide (WGS master)93
SRA Experiments125
Publications
PubMed1
Other datasets
BioSample94
Assembly93
Assembly details:
Assembly levelNumber of Assemblies
Contig Contig
Total
93
93
AssemblyLevelWGSBioSampleStrainTaxonomy
GCA_014851745.1ContigJACVAF000000000SAMN15951396
ACM01
Achromobacter sp. ACM01
GCA_014851605.1ContigJACUZY000000000SAMN15951403
ACM02
Achromobacter sp. ACM02
GCA_014851665.1ContigJACVAD000000000SAMN15951398
ACM03
Achromobacter sp. ACM03
GCA_014851465.1ContigJACUZS000000000SAMN15951410
ACM04
Achromobacter sp. ACM04
GCA_019218915.1ContigJAHUWQ000000000SAMN19994141
ACM05
Achromobacter sp. ACM05
GCA_014851495.1ContigJACUZT000000000SAMN15951409
ACV01
Acidovorax sp. ACV01
GCA_014851475.1ContigJACUZU000000000SAMN15951408
ACV02
Acidovorax sp. ACV02
GCA_019219095.1ContigJAHUWH000000000SAMN19994149
sic0104
Acidovorax sp. sic0104
GCA_019218865.1ContigJAHUWV000000000SAMN19994154
sif0613
Acidovorax sp. sif0613
GCA_019218805.1ContigJAHUWW000000000SAMN19994155
sif0632
Acidovorax sp. sif0632
GCA_019218825.1ContigJAHUWX000000000SAMN19994156
sif0715
Acidovorax sp. sif0715
GCA_019218785.1ContigJAHUWY000000000SAMN19994157
sif0732
Acidovorax sp. sif0732
GCA_019218755.1ContigJAHUWZ000000000SAMN19994158
sif1233
Acidovorax sp. sif1233
GCA_019219295.1ContigJAHUWA000000000SAMN19994147
sia0103
Aeromonas sp. sia0103
GCA_019218845.1ContigJAHUWU000000000SAMN19994153
sif0611
Aeromonas sp. sif0611
GCA_019218665.1ContigJAHUXC000000000SAMN19994159
sif2416
Aeromonas sp. sif2416
GCA_019218705.1ContigJAHUXD000000000SAMN19994160
sif2433
Aeromonas sp. sif2433
GCA_014851585.1ContigJACVAB000000000SAMN15951400
AGB01
Agrobacterium sp. AGB01
GCA_019219025.1ContigJAHUWN000000000SAMN19994152
sid0103
Bacillus sp. sid0103
GCA_019218885.1ContigJAHUWT000000000SAMN19994144
BOR01
Bordetella sp. BOR01
GCA_025685725.1ContigJAOTQT000000000SAMN15951359
BKH01
Burkholderia sp. BKH01
GCA_019219075.1ContigJAHUWJ000000000SAMN19994150
sic0106
Chitinophaga sp. sic0106
GCA_014852115.1ContigJACVAY000000000SAMN15951377
CMM01
Comamonas sp. CMM01
GCA_014851485.1ContigJACUZW000000000SAMN15951405
CMM02
Comamonas sp. CMM02
GCA_019218715.1ContigJAHUXB000000000SAMN19994146
CMM03
Comamonas sp. CMM03
GCA_014852125.1ContigJACVAZ000000000SAMN15951376
DLF01
Delftia sp. DLF01
GCA_019219065.1ContigJAHUWK000000000SAMN19994151
sic0402
Duganella sp. sic0402
GCA_014851775.1ContigJACVAL000000000SAMN15951390
ENS01
Ensifer sp. ENS01
GCA_014851885.1ContigJACVAO000000000SAMN15951387
ENS02
Ensifer sp. ENS02
GCA_014852035.1ContigJACVAV000000000SAMN15951380
ENS03
Ensifer sp. ENS03
GCA_014852085.1ContigJACVAX000000000SAMN15951378
ENS04
Ensifer sp. ENS04
GCA_014852095.1ContigJACVBB000000000SAMN15951374
ENS05
Ensifer sp. ENS05
GCA_014852205.1ContigJACVBC000000000SAMN15951373
ENS06
Ensifer sp. ENS06
GCA_014852185.1ContigJACVBE000000000SAMN15951371
ENS07
Ensifer sp. ENS07
GCA_014852195.1ContigJACVBF000000000SAMN15951370
ENS08
Ensifer sp. ENS08
GCA_014852425.1ContigJACVBP000000000SAMN15951360
ENS09
Ensifer sp. ENS09
GCA_014852025.1ContigJACVAS000000000SAMN15951383
ENS10
Ensifer sp. ENS10
GCA_014851895.1ContigJACVAN000000000SAMN15951388
ENS11
Ensifer sp. ENS11
GCA_019219005.1ContigJAHUWO000000000SAMN19994139
ENS12
Ensifer sp. ENS12
GCA_019219165.1ContigJAHUWD000000000SAMN19994132
ENT02
Enterobacter sp. ENT02
GCA_019218745.1ContigJAHUXA000000000SAMN19994145
ENT03
Enterobacter sp. ENT03
GCA_025641975.1ContigJAOTQS000000000SAMN15951406
ENT01
Lelliottia amnigena
GCA_014852315.1ContigJACVBH000000000SAMN15951368
PNT01
Pantoea sp. PNT01
GCA_014852415.1ContigJACVBQ000000000SAMN15951358
PNT02
Pantoea sp. PNT02
GCA_014852515.1ContigJACVBT000000000SAMN15951355
PNT03
Pantoea sp. PNT03
GCA_025598485.1ContigJAOSHR000000000SAMN31079008
ATCC 19367
Paracoccus denitrificans
GCA_014851995.1ContigJACVAW000000000SAMN15951379
PAR01
Paracoccus sp. PAR01
GCA_014852325.1ContigJACVBK000000000SAMN15951365
PDM01
Pseudomonas sp. PDM01
GCA_014852285.1ContigJACVBL000000000SAMN15951364
PDM02
Pseudomonas sp. PDM02
GCA_014852385.1ContigJACVBM000000000SAMN15951363
PDM03
Pseudomonas sp. PDM03
GCA_014851765.1ContigJACVAI000000000SAMN15951393
PDM04
Pseudomonas sp. PDM04
GCA_014851685.1ContigJACVAC000000000SAMN15951399
PDM05
Pseudomonas sp. PDM05
GCA_014852395.1ContigJACVBO000000000SAMN15951361
PDM07
Pseudomonas sp. PDM07
GCA_014852405.1ContigJACVBN000000000SAMN15951362
PDM08
Pseudomonas sp. PDM08
GCA_014852305.1ContigJACVBI000000000SAMN15951367
PDM09
Pseudomonas sp. PDM09
GCA_014852295.1ContigJACVBJ000000000SAMN15951366
PDM10
Pseudomonas sp. PDM10
GCA_014851505.1ContigJACUZV000000000SAMN15951407
PDM11
Pseudomonas sp. PDM11
GCA_014852485.1ContigJACVBR000000000SAMN15951357
PDM12
Pseudomonas sp. PDM12
GCA_025685765.1ContigJAOTQU000000000SAMN15951352
PDM13
Pseudomonas sp. PDM13
GCA_014851905.1ContigJACVAQ000000000SAMN15951385
PDM14
Pseudomonas sp. PDM14
GCA_014851565.1ContigJACVAA000000000SAMN15951401
PDM15
Pseudomonas sp. PDM15
GCA_014851865.1ContigJACVAM000000000SAMN15951389
PDM16
Pseudomonas sp. PDM16
GCA_014851985.1ContigJACVAT000000000SAMN15951382
PDM17
Pseudomonas sp. PDM17
GCA_014852585.1ContigJACVBX000000000SAMN15951350
PDM18
Pseudomonas sp. PDM18
GCA_014852215.1ContigJACVBG000000000SAMN15951369
PDM19
Pseudomonas sp. PDM19
GCA_014852575.1ContigJACVBW000000000SAMN15951351
PDM20
Pseudomonas sp. PDM20
GCA_014852505.1ContigJACVBU000000000SAMN15951354
PDM21
Pseudomonas sp. PDM21
GCA_014851965.1ContigJACVAR000000000SAMN15951384
PDM22
Pseudomonas sp. PDM22
GCA_014852225.1ContigJACVBD000000000SAMN15951372
PDM23
Pseudomonas sp. PDM23
GCA_019218905.1ContigJAHUWR000000000SAMN19994142
PDM24
Pseudomonas sp. PDM24
GCA_019219045.1ContigJAHUWL000000000SAMN19994137
PDM25
Pseudomonas sp. PDM25
GCA_019219185.1ContigJAHUWC000000000SAMN19994131
PDM26
Pseudomonas sp. PDM26
GCA_019219205.1ContigJAHUWF000000000SAMN19994134
PDM27
Pseudomonas sp. PDM27
GCA_019219115.1ContigJAHUWG000000000SAMN19994135
PDM28
Pseudomonas sp. PDM28
GCA_019219145.1ContigJAHUWI000000000SAMN19994136
PDM29
Pseudomonas sp. PDM29
GCA_019218985.1ContigJAHUWM000000000SAMN19994138
PDM30
Pseudomonas sp. PDM30
GCA_019218965.1ContigJAHUWS000000000SAMN19994143
PDM31
Pseudomonas sp. PDM31
GCA_019219225.1ContigJAHUWE000000000SAMN19994133
PDM32
Pseudomonas sp. PDM32
GCA_019219265.1ContigJAHUVZ000000000SAMN19994130
PDM33
Pseudomonas sp. PDM33
GCA_014851795.1ContigJACVAH000000000SAMN15951394
PDM06
Pseudomonas sp. Pdm06
GCA_019219245.1ContigJAHUWB000000000SAMN19994148
sia0905
Pseudomonas sp. sia0905
GCA_014851815.1ContigJACVAJ000000000SAMN15951392
PXM01
Pseudoxanthomonas sp. PXM01
GCA_014851805.1ContigJACVAK000000000SAMN15951391
PXM02
Pseudoxanthomonas sp. PXM02
GCA_014852005.1ContigJACVAU000000000SAMN15951381
PXM03
Pseudoxanthomonas sp. PXM03
GCA_014851695.1ContigJACVAG000000000SAMN15951395
PXM04
Pseudoxanthomonas sp. PXM04
GCA_019218945.1ContigJAHUWP000000000SAMN19994140
PXM05
Pseudoxanthomonas sp. PXM05
GCA_014852555.1ContigJACVBV000000000SAMN15951353
RLT01
Raoultella sp. RLT01
GCA_014851675.1ContigJACVAE000000000SAMN15951397
ARZ01
Rhizobium sp. ARZ01
GCA_014851595.1ContigJACUZZ000000000SAMN15951402
RHZ01
Rhizobium sp. RHZ01
GCA_014851575.1ContigJACUZX000000000SAMN15951404
RHZ02
Rhizobium sp. RHZ02
GCA_014852135.1ContigJACVBA000000000SAMN15951375
STM01
Stenotrophomonas sp. STM01
GCA_014852545.1ContigJACVBS000000000SAMN15951356
VRV01
Variovorax sp. VRV01
GCA_014851915.1ContigJACVAP000000000SAMN15951386
XNM01
Xanthomonas sp. XNM01
SRA Data Details
ParameterValue
Data volume, Gbases71
Data volume, Mbytes43532

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