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Accession: PRJNA1164417 ID: 1164417

Fungal pathogen genome surveillance in Pakistan

Whole genome sequencing of fungal isolates cultured by the Aga Khan University Hospital clinical microbiology laboratory from clinical specimens collected in Karachi and other sites in Pakistan.
AccessionPRJNA1164417
Data TypeGenome sequencing
ScopeMultispecies
Grants
  • "Surveillance of antimicrobial-resistant Gram negative bacteria and fungi in a Pakistan health care system" (Grant ID NU3HCK000007, US Centers for Disease Control and Prevention)
  • "Illumina MiSeq High-Throughput DNA Sequencer" (Grant ID S10 OD032243, Office of the Director)
SubmissionRegistration date: 24-Sep-2024
Northwestern University Feinberg School of Medicine
RelevanceMedical
Project Data:
Resource NameNumber
of Links
Sequence data
Nucleotide (WGS master)262
SRA Experiments264
Other datasets
BioSample263
Assembly262
Assembly details:
Assembly levelNumber of Assemblies
262
262
AssemblyLevelWGSBioSampleStrainTaxonomy
GCA_046254435.1ContigJBIUJS000000000SAMN44002098
1-CA
GCA_046254405.1ContigJBIUJT000000000SAMN44002099
10-CA_1
GCA_046254375.1ContigJBIUJU000000000SAMN44002100
100-CA
GCA_046254355.1ContigJBIUJV000000000SAMN44002101
101-CA
GCA_046254305.1ContigJBIUJX000000000SAMN44002103
103-CA
GCA_046254295.1ContigJBIUJY000000000SAMN44002104
104-CA_1
GCA_046254265.1ContigJBIUJW000000000SAMN44002102
102-CA
GCA_046254225.1ContigJBIUJZ000000000SAMN44002105
105-CA
GCA_046254205.1ContigJBIUKA000000000SAMN44002106
106-CA_1
GCA_046254165.1ContigJBIUKB000000000SAMN44002107
106-CS
GCA_046254135.1ContigJBIUKC000000000SAMN44002108
107-CA
GCA_046254115.1ContigJBIUKD000000000SAMN44002109
108-CA
GCA_046254075.1ContigJBIUKG000000000SAMN44002112
110-CA
GCA_046254055.1ContigJBIUKE000000000SAMN44002110
109-CA
GCA_046254025.1ContigJBIUKF000000000SAMN44002111
11-CA
GCA_046253995.1ContigJBIUKH000000000SAMN44002113
111-CA
GCA_046253955.1ContigJBIUKI000000000SAMN44002114
112-CA
GCA_046253925.1ContigJBIUKK000000000SAMN44002116
114-CA
GCA_046253895.1ContigJBIUKJ000000000SAMN44002115
113-CA_1
GCA_046253875.1ContigJBIUKM000000000SAMN44002118
116-CA
GCA_046253845.1ContigJBIUKL000000000SAMN44002117
115-CA
GCA_046253815.1ContigJBIUKN000000000SAMN44002119
117-CA
GCA_046253755.1ContigJBIUKQ000000000SAMN44002122
12-CA
GCA_046253775.1ContigJBIUKO000000000SAMN44002120
118-CA
GCA_046253715.1ContigJBIUKP000000000SAMN44002121
119-CA
GCA_046253665.1ContigJBIUKR000000000SAMN44002123
120-CA
GCA_046253685.1ContigJBIUKS000000000SAMN44002124
121-CA_1
GCA_046253635.1ContigJBIUKT000000000SAMN44002125
122-CA
GCA_046253535.1ContigJBIUKU000000000SAMN44002126
123-CA_1
GCA_046253575.1ContigJBIUKW000000000SAMN44002128
125-CA
GCA_046253505.1ContigJBIUKX000000000SAMN44002129
126-CA
GCA_046253555.1ContigJBIUKV000000000SAMN44002127
124-CA
GCA_046253485.1ContigJBIUKY000000000SAMN44002130
127-CA
GCA_046253445.1ContigJBIUKZ000000000SAMN44002131
128-CA
GCA_046253425.1ContigJBIULA000000000SAMN44002132
129-CA
GCA_046253375.1ContigJBIULB000000000SAMN44002133
13-CA_1
GCA_046253355.1ContigJBIULD000000000SAMN44002135
131-CA
GCA_046253335.1ContigJBIULC000000000SAMN44002134
130-CA
GCA_046253305.1ContigJBIULE000000000SAMN44002136
132-CA
GCA_046253275.1ContigJBIULF000000000SAMN44002137
133-CA
GCA_046253235.1ContigJBIULG000000000SAMN44002138
134-CA_1
GCA_046253205.1ContigJBIULH000000000SAMN44002139
135-CA
GCA_046253185.1ContigJBIULI000000000SAMN44002140
136-CA
GCA_046253155.1ContigJBIULN000000000SAMN44002145
140-CA
GCA_046253075.1ContigJBIULL000000000SAMN44002143
139-CA
GCA_046253105.1ContigJBIULJ000000000SAMN44002141
137-CA
GCA_046253055.1ContigJBIULM000000000SAMN44002144
14-CA
GCA_046253035.1ContigJBIULK000000000SAMN44002142
138-CA
GCA_046252905.1ContigJBIULS000000000SAMN44002150
145-CA
GCA_046252925.1ContigJBIULQ000000000SAMN44002148
143-CA
GCA_046252945.1ContigJBIULO000000000SAMN44002146
141-CA
GCA_046252965.1ContigJBIULP000000000SAMN44002147
142-CA
GCA_046252885.1ContigJBIULR000000000SAMN44002149
144-CA
GCA_046252855.1ContigJBIULT000000000SAMN44002151
15-CA
GCA_046252815.1ContigJBIULV000000000SAMN44002153
16-CA
GCA_046252795.1ContigJBIULW000000000SAMN44002154
17-CA_1
GCA_046252755.1ContigJBIULU000000000SAMN44002152
159-CS
GCA_046252735.1ContigJBIULX000000000SAMN44002155
18-CA
GCA_046252705.1ContigJBIULY000000000SAMN44002156
19-CA
GCA_046252645.1ContigJBIUMA000000000SAMN44002158
20-CA
GCA_046252585.1ContigJBIUMB000000000SAMN44002159
202 1-CA
GCA_046252625.1ContigJBIULZ000000000SAMN44002157
2-CA
GCA_046252605.1ContigJBIUMD000000000SAMN44002161
22-CA
GCA_046252555.1ContigJBIUMC000000000SAMN44002160
21-CA
GCA_046252475.1ContigJBIUME000000000SAMN44002162
23-CA_1
GCA_046252445.1ContigJBIUMI000000000SAMN44002166
27-CA
GCA_046252485.1ContigJBIUMF000000000SAMN44002163
24-CA
GCA_046252425.1ContigJBIUMH000000000SAMN44002165
26-CA
GCA_046252405.1ContigJBIUMG000000000SAMN44002164
25-CA
GCA_046252375.1ContigJBIUMJ000000000SAMN44002167
28-CA
GCA_046252285.1ContigJBIUMM000000000SAMN44002170
30-CA
GCA_046252305.1ContigJBIUML000000000SAMN44002169
3-CA_1
GCA_046252325.1ContigJBIUMK000000000SAMN44002168
29-CA_1
GCA_046252255.1ContigJBIUMO000000000SAMN44002172
32-CA
GCA_046252225.1ContigJBIUMN000000000SAMN44002171
31-CA
GCA_046252185.1ContigJBIUMQ000000000SAMN44002174
34-CA
GCA_046252165.1ContigJBIUMP000000000SAMN44002173
33-CA
GCA_046252135.1ContigJBIUMR000000000SAMN44002175
35-CA_1
GCA_046252095.1ContigJBIUMT000000000SAMN44002177
37-CA
GCA_046252075.1ContigJBIUMS000000000SAMN44002176
36-CA
GCA_046252015.1ContigJBIUMW000000000SAMN44002180
39-CA
GCA_046252035.1ContigJBIUMU000000000SAMN44002178
37-CS
GCA_046251955.1ContigJBIUMX000000000SAMN44002181
4-CA
GCA_046251975.1ContigJBIUMV000000000SAMN44002179
38-CA
GCA_046251925.1ContigJBIUMY000000000SAMN44002182
40-CA_1
GCA_046251895.1ContigJBIUMZ000000000SAMN44002183
41-CA
GCA_046251815.1ContigJBIUNC000000000SAMN44002186
44-CA_1
GCA_046251845.1ContigJBIUNA000000000SAMN44002184
42-CA
GCA_046251795.1ContigJBIUNE000000000SAMN44002188
45-CA
GCA_046251775.1ContigJBIUND000000000SAMN44002187
44-CS
GCA_046251745.1ContigJBIUNB000000000SAMN44002185
43-CA
GCA_046251655.1ContigJBIUNJ000000000SAMN44002193
5-CA_1
GCA_046251595.1ContigJBIUNI000000000SAMN44002192
49-CA_1
GCA_046251615.1ContigJBIUNH000000000SAMN44002191
48-CA
GCA_046251675.1ContigJBIUNG000000000SAMN44002190
47-CA
GCA_046251555.1ContigJBIUNL000000000SAMN44002195
52-CA
GCA_046251635.1ContigJBIUNF000000000SAMN44002189
46-CA
GCA_046251535.1ContigJBIUNK000000000SAMN44002194
51-CA
GCA_046251445.1ContigJBIUNO000000000SAMN44002198
55-CA
GCA_046251485.1ContigJBIUNN000000000SAMN44002197
54-CA
GCA_046251465.1ContigJBIUNM000000000SAMN44002196
53-CA
GCA_046251415.1ContigJBIUNQ000000000SAMN44002200
58-CA
GCA_046251385.1ContigJBIUNR000000000SAMN44002201
59-CA
GCA_046251315.1ContigJBIUNS000000000SAMN44002202
6-CA_1
GCA_046251355.1ContigJBIUNP000000000SAMN44002199
56-CA
GCA_046251295.1ContigJBIUNT000000000SAMN44002203
60-CA_1
GCA_046251255.1ContigJBIUNU000000000SAMN44002204
61-CA_1
GCA_046251185.1ContigJBIUNW000000000SAMN44002206
63-CA
GCA_046251195.1ContigJBIUNV000000000SAMN44002205
62-CA_1
GCA_046251145.1ContigJBIUNY000000000SAMN44002208
65-CA
GCA_046251155.1ContigJBIUNX000000000SAMN44002207
64-CA
GCA_046251105.1ContigJBIUNZ000000000SAMN44002209
66-CA_1
GCA_046251065.1ContigJBIUOA000000000SAMN44002210
67-CA
GCA_046251035.1ContigJBIUOB000000000SAMN44002211
68-CA
GCA_046250995.1ContigJBIUOD000000000SAMN44002213
70-CA
GCA_046251005.1ContigJBIUOC000000000SAMN44002212
7-CA
GCA_046250895.1ContigJBIUOE000000000SAMN44002214
72-CA
GCA_046250915.1ContigJBIUOF000000000SAMN44002215
73-CA
GCA_046250905.1ContigJBIUOG000000000SAMN44002216
74-CA
GCA_046250865.1ContigJBIUOH000000000SAMN44002217
75-CA
GCA_046250845.1ContigJBIUOI000000000SAMN44002218
76-CA
GCA_046250815.1ContigJBIUOJ000000000SAMN44002219
77-CA
GCA_046250715.1ContigJBIUOL000000000SAMN44002221
79-CA
GCA_046250725.1ContigJBIUOK000000000SAMN44002220
78-CA
GCA_046250735.1ContigJBIUOM000000000SAMN44002222
8-CA
GCA_046250695.1ContigJBIUON000000000SAMN44002223
80-CA
GCA_046250655.1ContigJBIUOO000000000SAMN44002224
81-CA
GCA_046250585.1ContigJBIUOS000000000SAMN44002228
87-CA
GCA_046250555.1ContigJBIUOQ000000000SAMN44002226
83-CA
GCA_046250565.1ContigJBIUOR000000000SAMN44002227
84-CA
GCA_046250535.1ContigJBIUOP000000000SAMN44002225
82-CA_1
GCA_046250515.1ContigJBIUOT000000000SAMN44002229
89-CA
GCA_046250425.1ContigJBIUOV000000000SAMN44002231
90-CA
GCA_046250385.1ContigJBIUOW000000000SAMN44002232
91-CA
GCA_046250415.1ContigJBIUOX000000000SAMN44002233
93-CA
GCA_046250365.1ContigJBIUOY000000000SAMN44002234
94-CA
GCA_046250395.1ContigJBIUOU000000000SAMN44002230
9-CA
GCA_046250235.1ContigJBIUPC000000000SAMN44002238
98-CA_1
GCA_046250265.1ContigJBIUOZ000000000SAMN44002235
95-CA_1
GCA_046250245.1ContigJBIUPB000000000SAMN44002237
97-CA
GCA_046250225.1ContigJBIUPD000000000SAMN44002239
99-CA
GCA_046250215.1ContigJBIUPA000000000SAMN44002236
96-CA
GCA_046134795.1ContigJBIUJQ000000000SAMN43900896
130-CS
GCA_046134835.1ContigJBIUJR000000000SAMN43900895
129-CS
GCA_046134755.1ContigJBIUJP000000000SAMN43900897
171-CS
GCA_046134705.1ContigJBIUJO000000000SAMN43900898
193-CS
GCA_046134635.1ContigJBIUJN000000000SAMN43900899
197-CS
GCA_046134615.1ContigJBHOLR000000000SAMN43900900
2020-420
GCA_046134595.1ContigJBHOLQ000000000SAMN43900901
2020-588
GCA_046134525.1ContigJBIUJM000000000SAMN43900902
2020-592
GCA_046134495.1ContigJBIUJL000000000SAMN43900903
2020-603
GCA_046134425.1ContigJBIUJK000000000SAMN43900904
259-CS
GCA_046134305.1ContigJBIUJJ000000000SAMN43900905
321-CS
GCA_046134355.1ContigJBIUJI000000000SAMN43900906
324-CS_2
GCA_046134245.1ContigJBIUJH000000000SAMN43900907
343-CS
GCA_046131045.1ContigJBIUHX000000000SAMN43900988
258-CS
GCA_046131005.1ContigJBIUHZ000000000SAMN43900986
254-CS
GCA_046131025.1ContigJBIUHY000000000SAMN43900987
257-CS
GCA_046131165.1ContigJBIUIA000000000SAMN43900985
253-CS
GCA_046131255.1ContigJBIUIC000000000SAMN43900983
246-CS
GCA_046131655.1ContigJBIUII000000000SAMN43900977
236-CS
GCA_046131585.1ContigJBIUIJ000000000SAMN43900976
233-CS
GCA_046131545.1ContigJBIUIK000000000SAMN43900973
226-CS
GCA_046131525.1ContigJBIUIH000000000SAMN43900978
239-CS
GCA_046131415.1ContigJBIUIF000000000SAMN43900980
241-CS
GCA_046131345.1ContigJBIUIG000000000SAMN43900979
240-CS
GCA_046131275.1ContigJBIUIE000000000SAMN43900981
242-CS
GCA_046131295.1ContigJBIUID000000000SAMN43900982
243-CS
GCA_046131815.1ContigJBHOKD000000000SAMN43900965
21-CS
GCA_046131695.1ContigJBIUIL000000000SAMN43900972
224-CS
GCA_046131795.1ContigJBIUIO000000000SAMN43900964
207-CS
GCA_046131895.1ContigJBHOKC000000000SAMN43900967
212-CS_1
GCA_046132025.1ContigJBIUIP000000000SAMN43900963
206-CS
GCA_046131965.1ContigJBIUIN000000000SAMN43900966
210-CS
GCA_046131865.1ContigJBIUIM000000000SAMN43900969
219-CS
GCA_046132055.1ContigJBIUIQ000000000SAMN43900962
205-CS
GCA_046132165.1ContigJBHOKE000000000SAMN43900961
2020-669
GCA_046132225.1ContigJBHOKF000000000SAMN43900960
2020-667
GCA_046132205.1ContigJBHOKG000000000SAMN43900959
2020-649
GCA_046132185.1ContigJBHOKH000000000SAMN43900958
2020-613
GCA_046132265.1ContigJBIUIR000000000SAMN43900957
2020-593
GCA_046132345.1ContigJBHOKM000000000SAMN43900952
2020-534
GCA_046132305.1ContigJBHOKI000000000SAMN43900956
2020-591
GCA_046132395.1ContigJBHOKK000000000SAMN43900954
2020-589
GCA_046132365.1ContigJBHOKJ000000000SAMN43900955
2020-590
GCA_046132485.1ContigJBHOKL000000000SAMN43900953
2020-587
GCA_046132525.1ContigJBHOKO000000000SAMN43900950
2020-527
GCA_046132505.1ContigJBHOKN000000000SAMN43900951
2020-533
GCA_046132565.1ContigJBIUIS000000000SAMN43900949
2020-498
GCA_046132595.1ContigJBHOKP000000000SAMN43900948
2020-479
GCA_046132655.1ContigJBHOKR000000000SAMN43900946
2020-287
GCA_046132695.1ContigJBIUIT000000000SAMN43900944
200-CS
GCA_046130205.1ContigJBIUHJ000000000SAMN43901002
308-CS
GCA_046130175.1ContigJBIUHG000000000SAMN43901005
329-CS
GCA_046130105.1ContigJBIUHH000000000SAMN43901004
328-CS
GCA_046130395.1ContigJBIUHM000000000SAMN43900999
300-CS
GCA_046130365.1ContigJBIUHK000000000SAMN43901001
307-CS
GCA_046130315.1ContigJBIUHL000000000SAMN43901000
306-CS
GCA_046130415.1ContigJBIUHN000000000SAMN43900998
283-CS
GCA_046130585.1ContigJBIUHQ000000000SAMN43900995
279-CS
GCA_046130475.1ContigJBIUHO000000000SAMN43900997
281-CS
GCA_046130655.1ContigJBIUHR000000000SAMN43900994
277-CS
GCA_046130635.1ContigJBIUHP000000000SAMN43900996
280-CS
GCA_046130615.1ContigJBIUHS000000000SAMN43900993
276-CS
GCA_046130805.1ContigJBIUHT000000000SAMN43900992
272-CS
GCA_046131135.1ContigJBIUIB000000000SAMN43900984
247-CS
GCA_046130905.1ContigJBIUHV000000000SAMN43900990
264-CS
GCA_046130885.1ContigJBIUHW000000000SAMN43900989
260-CS
GCA_046129965.1ContigJBIUHE000000000SAMN43901007
336-CS
GCA_046129915.1ContigJBIUHD000000000SAMN43901008
346-CS
GCA_046129995.1ContigJBIUHF000000000SAMN43901006
331-CS
GCA_046130125.1ContigJBIUHI000000000SAMN43901003
311-CS
GCA_046130785.1ContigJBIUHU000000000SAMN43900991
265-CS
GCA_046129625.1ContigJBHOKA000000000SAMN43900970
222-CS
GCA_046129585.1ContigJBHOJZ000000000SAMN43900971
223-CS
GCA_046129605.1ContigJBHOKB000000000SAMN43900968
218-CS
GCA_046129445.1ContigJBHOJV000000000SAMN43901010
354-CS
GCA_046129455.1ContigJBHOJU000000000SAMN43901011
360-CS
GCA_046129425.1ContigJBHOJY000000000SAMN43900974
227-CS
GCA_046129405.1ContigJBHOJX000000000SAMN43900975
228-CS
GCA_046129385.1ContigJBHOJW000000000SAMN43901009
348-CS
GCA_046129225.1ContigJBHOJS000000000SAMN43901013
362-CS
GCA_046129205.1ContigJBHOJT000000000SAMN43901012
361-CS
GCA_046129185.1ContigJBHOJR000000000SAMN43901014
363-CS
GCA_046132785.1ContigJBHOKT000000000SAMN43900943
20-CS_2
GCA_046132755.1ContigJBHOKS000000000SAMN43900945
201-CS
GCA_046132735.1ContigJBHOKQ000000000SAMN43900947
2020-381
GCA_046132825.1ContigJBIUIU000000000SAMN43900942
192-CS
GCA_046132975.1ContigJBHOKW000000000SAMN43900938
183-CS
GCA_046132935.1ContigJBHOKU000000000SAMN43900940
19-CS_2
GCA_046133025.1ContigJBHOKV000000000SAMN43900939
185-CS
GCA_046133125.1ContigJBHOKX000000000SAMN43900937
182-CS
GCA_046132955.1ContigJBIUIV000000000SAMN43900941
191-CS
GCA_046133105.1ContigJBIUIW000000000SAMN43900936
176-CS
GCA_046133085.1ContigJBIUIX000000000SAMN43900935
172-CS
GCA_046133185.1ContigJBIUIY000000000SAMN43900934
165-CS
GCA_046133205.1ContigJBIUIZ000000000SAMN43900933
164-CS
GCA_046133305.1ContigJBHOKY000000000SAMN43900932
158-CS
GCA_046133345.1ContigJBHOKZ000000000SAMN43900931
157-CS
GCA_046133465.1ContigJBHOLB000000000SAMN43900928
151-CS
GCA_046133405.1ContigJBHOLC000000000SAMN43900926
148-CS
GCA_046133385.1ContigJBHOLA000000000SAMN43900930
153-CS
GCA_046133515.1ContigJBHOLD000000000SAMN43900925
147-CS
GCA_046133445.1ContigJBIUJA000000000SAMN43900929
152-CS
GCA_046133535.1ContigJBIUJB000000000SAMN43900927
149-CS
GCA_046133645.1ContigJBHOLF000000000SAMN43900923
140-CS
GCA_046133625.1ContigJBHOLE000000000SAMN43900924
144-CS
GCA_046133685.1ContigJBIUJC000000000SAMN43900922
137-CS
GCA_046133715.1ContigJBHOLG000000000SAMN43900920
131-CS
GCA_046133815.1ContigJBHOLI000000000SAMN43900918
124-CS
GCA_046133835.1ContigJBHOLH000000000SAMN43900919
125-CS
GCA_046133945.1ContigJBHOLK000000000SAMN43900915
120-CS
GCA_046133905.1ContigJBHOLJ000000000SAMN43900917
123-CS
GCA_046133775.1ContigJBIUJD000000000SAMN43900921
135-CS
GCA_046134055.1ContigJBHOLM000000000SAMN43900912
112-CS
GCA_046134015.1ContigJBHOLL000000000SAMN43900914
116-CS
GCA_046133925.1ContigJBIUJE000000000SAMN43900916
121-CS
GCA_046134165.1ContigJBHOLO000000000SAMN43900909
109-CS
GCA_046134035.1ContigJBIUJF000000000SAMN43900913
115-CS
GCA_046134145.1ContigJBHOLN000000000SAMN43900911
111-CS
GCA_046134225.1ContigJBHOLP000000000SAMN43900908
107-CS
GCA_046134265.1ContigJBIUJG000000000SAMN43900910
110-CS
SRA Data Details
ParameterValue
Data volume, Gbases683
Data volume, Tbytes0.24

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