ID 658369 - BioProject

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Accession: PRJNA658369 ID: 658369

Whole genome sequencing data in the USA from Consortium on Resistance Against Carbapenems in Klebsiella and other Enterobacterales 2 (CRACKLE-2) Study: Genome sequencing and assembly

The World Health Organization (WHO) currently classifies carbapenem-resistant Enterobacterales (CRE) as one of the top three most dangerous multidrug-resistant pathogens. More...

Accession	PRJNA658369
Data Type	Genome sequencing and assembly, Raw sequence reads
Scope	Multispecies
Publications	van Duin D et al., "Molecular and clinical epidemiology of carbapenem-resistant Enterobacterales in the USA (CRACKLE-2): a prospective cohort study.", Lancet Infect Dis, 2020 Jun;20(6):731-741 Published online: Shropshire W et al., "Accessory Genomes Drive Independent Spread of Carbapenem-Resistant Klebsiella pneumoniae Clonal Groups 258 and 307 in Houston, TX", mBio, 2022;13(2)
Grants	"POR Program on Genomic Prediction of Antimicrobial Resistance in VRE" (Grant ID K24 AI121296, National Institute of Allergy and Infectious Diseases Extramural Activities) "The molecular basis of the carbapenem resistance epidemic" (Grant ID R01 AI090155, National Institute of Allergy and Infectious Diseases Extramural Activities) "Molecular Mechanisms Of Daptomycin Resistance In Enterococci" (Grant ID R01 AI093749, National Institute of Allergy and Infectious Diseases Extramural Activities) "The LiaFSR system and antimicrobial peptide resistance in enterococci" (Grant ID R01 AI134637, National Institute of Allergy and Infectious Diseases Extramural Activities) "Bacterial Characteristics of Community-associated Carbapenem-Resistant Enterobacteriaceae" (Grant ID R01 AI143910, National Institute of Allergy and Infectious Diseases Extramural Activities) "Genomic variation in epidemic carbapenem-resistant K.pneumoniae" (Grant ID R21 AI117338, National Institute of Allergy and Infectious Diseases Extramural Activities) "Targeting Cell Membrane Adaptation in Multidrug-Resistant Enterococcus faecium" (Grant ID R21 AI121519, National Institute of Allergy and Infectious Diseases Extramural Activities) "Unraveling colistin resistance in Klebsiella pneumoniae" (Grant ID R21 AI135250, National Institute of Allergy and Infectious Diseases Extramural Activities) "Antibacterial Resistance Leadership Group (ARLG)" (Grant ID UM1 AI104681, National Institute of Allergy and Infectious Diseases Extramural Activities) "Antibacterial Resistance Leadership Group (ARLG)" (Grant ID UM1 AI104681, National Institute of Allergy and Infectious Diseases Extramural Activities)
Submission	Registration date: 20-Aug-2020 Hackensack-Meridian Health Center for Discovery and Innovation
Relevance	Medical

Project Data:

Resource Name	Number of Links
Sequence data
Nucleotide (Genomic DNA)	562
SRA Experiments	2279
Protein Sequences	662150
Publications
PubMed	1
PMC	1
Other datasets
BioSample	2163
Assembly	124

Assembly details:

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Assembly level

Number of Assemblies

Complete genome

Total

124
124

Assembly	Chrs	BioSample	Strain	Taxonomy
GCA_034075585.1	4	SAMN15869164	ARLG-4622	Klebsiella pneumoniae
GCA_034077205.1	6	SAMN15868158	ARLG-3484	Klebsiella pneumoniae
GCA_034076465.1	6	SAMN15868726	ARLG-4720	Klebsiella pneumoniae
GCA_034073905.1	6	SAMN19016597	ARLG-7683	Klebsiella pneumoniae
GCA_034074665.1	6	SAMN15868737	ARLG-4744	Klebsiella pneumoniae
GCA_022433545.1	6	SAMN17131931	ARLG-8055	Klebsiella pneumoniae
GCA_022433525.1	4	SAMN15869059	ARLG-3179	Klebsiella pneumoniae
GCA_022433505.1	6	SAMN15868705	ARLG-3289	Klebsiella pneumoniae
GCA_022433485.1	6	SAMN15868676	ARLG-3304	Klebsiella pneumoniae
GCA_022433465.1	4	SAMN15868678	ARLG-3311	Klebsiella pneumoniae
GCA_022433445.1	4	SAMN15868710	ARLG-3480	Klebsiella pneumoniae
GCA_022433425.1	6	SAMN15869108	ARLG-4590	Klebsiella pneumoniae
GCA_022433405.1	5	SAMN15869112	ARLG-4884	Klebsiella pneumoniae
GCA_022433385.1	6	SAMN15869162	ARLG-4929	Klebsiella pneumoniae
GCA_022433365.1	6	SAMN15868682	ARLG-4624	Klebsiella pneumoniae
GCA_022433605.1	7	SAMN17131928	ARLG-8050	Klebsiella pneumoniae
GCA_022433585.1	5	SAMN17131929	ARLG-8053	Klebsiella pneumoniae
GCA_022434655.1	4	SAMN15869045	ARLG-4875	Klebsiella pneumoniae
GCA_022434535.1	2	SAMN15869049	ARLG-4567	Klebsiella pneumoniae
GCA_022434515.1	3	SAMN17131922	ARLG-10778	Klebsiella pneumoniae
GCA_022434495.1	7	SAMN15869050	ARLG-4568	Klebsiella pneumoniae
GCA_022434475.1	6	SAMN15869051	ARLG-4569	Klebsiella pneumoniae
GCA_022434455.1	7	SAMN17131923	ARLG-10779	Klebsiella pneumoniae
GCA_022434435.1	7	SAMN15869052	ARLG-4570	Klebsiella pneumoniae
GCA_022434415.1	2	SAMN15869053	ARLG-4571	Klebsiella pneumoniae
GCA_022434395.1	4	SAMN15869055	ARLG-4574	Klebsiella pneumoniae
GCA_022434375.1	5	SAMN15869056	ARLG-4575	Klebsiella pneumoniae
GCA_022434355.1	4	SAMN17131924	ARLG-8043	Klebsiella pneumoniae
GCA_022434335.1	5	SAMN17131925	ARLG-8044	Klebsiella pneumoniae
GCA_022434315.1	7	SAMN17131926	ARLG-8045	Klebsiella pneumoniae
GCA_022434295.1	2	SAMN17131927	ARLG-8048	Klebsiella pneumoniae
GCA_022435665.1	7	SAMN15868344	ARLG-3463	Klebsiella pneumoniae
GCA_022435645.1	3	SAMN15868151	ARLG-3473	Klebsiella pneumoniae
GCA_022435625.1	4	SAMN15868159	ARLG-3489	Klebsiella pneumoniae
GCA_022435605.1	3	SAMN15868516	ARLG-4428	Klebsiella pneumoniae
GCA_022435585.1	4	SAMN15868500	ARLG-4403	Klebsiella pneumoniae
GCA_022435565.1	4	SAMN15868505	ARLG-4408	Klebsiella pneumoniae
GCA_022435545.1	3	SAMN15868171	ARLG-4398	Klebsiella pneumoniae
GCA_022435525.1	5	SAMN15869030	ARLG-4855	Klebsiella pneumoniae
GCA_022435175.1	4	SAMN15869031	ARLG-4856	Klebsiella pneumoniae
GCA_022435135.1	4	SAMN17131918	ARLG-4564	Klebsiella pneumoniae
GCA_022435115.1	7	SAMN15869032	ARLG-4857	Klebsiella pneumoniae
GCA_022435095.1	6	SAMN17131919	ARLG-10777	Klebsiella pneumoniae
GCA_022435075.1	4	SAMN15869034	ARLG-4859	Klebsiella pneumoniae
GCA_022435055.1	5	SAMN15869035	ARLG-4860	Klebsiella pneumoniae
GCA_022435035.1	6	SAMN15869036	ARLG-4861	Klebsiella pneumoniae
GCA_022435015.1	4	SAMN17131920	ARLG-4862	Klebsiella pneumoniae
GCA_022434995.1	3	SAMN15869038	ARLG-4865	Klebsiella pneumoniae
GCA_022434975.1	4	SAMN15869037	ARLG-4864	Klebsiella pneumoniae
GCA_022434955.1	6	SAMN15869042	ARLG-4870	Klebsiella pneumoniae
GCA_022434935.1	7	SAMN15869039	ARLG-4866	Klebsiella pneumoniae
GCA_022434915.1	4	SAMN15869043	ARLG-4871	Klebsiella pneumoniae
GCA_022434895.1	4	SAMN15869044	ARLG-4872	Klebsiella pneumoniae
GCA_022434875.1	5	SAMN17131921	ARLG-4874	Klebsiella pneumoniae
GCA_022434855.1	3	SAMN15869046	ARLG-4565	Klebsiella pneumoniae
GCA_022434775.1	4	SAMN15869048	ARLG-4877	Klebsiella pneumoniae
GCA_022437885.1	4	SAMN15868242	ARLG-3623	Klebsiella pneumoniae
GCA_022437865.1	4	SAMN15868273	ARLG-4260	Klebsiella pneumoniae
GCA_022437845.1	5	SAMN15868243	ARLG-4229	Klebsiella pneumoniae
GCA_022439345.1	5	SAMN15869132	ARLG-4673	Klebsiella pneumoniae
GCA_022439325.1	4	SAMN15868729	ARLG-4723	Klebsiella pneumoniae
GCA_022439305.1	5	SAMN15868955	ARLG-3181	Klebsiella pneumoniae
GCA_022439285.1	6	SAMN15869095	ARLG-4771	Klebsiella pneumoniae
GCA_022439265.1	3	SAMN15868801	ARLG-4793	Klebsiella pneumoniae
GCA_022439245.1	4	SAMN15868954	ARLG-3180	Klebsiella pneumoniae
GCA_022439225.1	4	SAMN15868957	ARLG-3183	Klebsiella pneumoniae
GCA_022439205.1	4	SAMN15868956	ARLG-3182	Klebsiella pneumoniae
GCA_022439185.1	3	SAMN15868958	ARLG-3185	Klebsiella pneumoniae
GCA_022439165.1	5	SAMN15868959	ARLG-3186	Klebsiella pneumoniae
GCA_022439145.1	4	SAMN15868960	ARLG-3187	Klebsiella pneumoniae
GCA_022439125.1	5	SAMN15868961	ARLG-3188	Klebsiella pneumoniae
GCA_022439085.1	6	SAMN17131910	ARLG-3190	Klebsiella pneumoniae
GCA_022439065.1	3	SAMN15868964	ARLG-3192	Klebsiella pneumoniae
GCA_022439045.1	3	SAMN15868966	ARLG-3194	Klebsiella pneumoniae
GCA_022439025.1	2	SAMN15868967	ARLG-3195	Klebsiella pneumoniae
GCA_022439005.1	6	SAMN15868968	ARLG-3196	Klebsiella pneumoniae
GCA_022438985.1	3	SAMN15868969	ARLG-3197	Klebsiella pneumoniae
GCA_022438965.1	3	SAMN15868970	ARLG-3198	Klebsiella pneumoniae
GCA_022438945.1	6	SAMN15868971	ARLG-3199	Klebsiella pneumoniae
GCA_022438925.1	5	SAMN15868974	ARLG-3204	Klebsiella pneumoniae
GCA_022438905.1	3	SAMN15868975	ARLG-3205	Klebsiella pneumoniae
GCA_022438885.1	5	SAMN15868976	ARLG-3206	Klebsiella pneumoniae
GCA_022438865.1	5	SAMN15868979	ARLG-3211	Klebsiella pneumoniae
GCA_022438845.1	6	SAMN15868977	ARLG-3208	Klebsiella pneumoniae
GCA_022438825.1	4	SAMN15868980	ARLG-3214	Klebsiella pneumoniae
GCA_022438805.1	4	SAMN15868981	ARLG-3213	Klebsiella pneumoniae
GCA_022438785.1	5	SAMN15868982	ARLG-3215	Klebsiella pneumoniae
GCA_022438765.1	4	SAMN15868983	ARLG-3218	Klebsiella pneumoniae
GCA_022438645.1	3	SAMN15868984	ARLG-3220	Klebsiella pneumoniae
GCA_022438625.1	3	SAMN15868985	ARLG-3222	Klebsiella pneumoniae
GCA_022438605.1	7	SAMN15868986	ARLG-3223	Klebsiella pneumoniae
GCA_022438585.1	5	SAMN15868987	ARLG-3224	Klebsiella pneumoniae
GCA_022438565.1	5	SAMN15868988	ARLG-3226	Klebsiella pneumoniae
GCA_022438545.1	4	SAMN17131911	ARLG-3288	Klebsiella pneumoniae
GCA_022438525.1	5	SAMN15868992	ARLG-3234	Klebsiella pneumoniae
GCA_022438505.1	4	SAMN15868993	ARLG-3235	Klebsiella pneumoniae
GCA_022438485.1	5	SAMN15868994	ARLG-3237	Klebsiella pneumoniae
GCA_022438465.1	4	SAMN15868996	ARLG-3239	Klebsiella pneumoniae
GCA_022438445.1	3	SAMN15868997	ARLG-3240	Klebsiella pneumoniae
GCA_022438425.1	5	SAMN15868998	ARLG-3241	Klebsiella pneumoniae
GCA_022438405.1	4	SAMN15868999	ARLG-3242	Klebsiella pneumoniae
GCA_022438385.1	3	SAMN15869001	ARLG-3245	Klebsiella pneumoniae
GCA_022438365.1	4	SAMN15869007	ARLG-3251	Klebsiella pneumoniae
GCA_022438345.1	4	SAMN15869003	ARLG-3247	Klebsiella pneumoniae
GCA_022438325.1	3	SAMN15869011	ARLG-3255	Klebsiella pneumoniae
GCA_022438305.1	4	SAMN15869010	ARLG-3254	Klebsiella pneumoniae
GCA_022438285.1	5	SAMN15869012	ARLG-3256	Klebsiella pneumoniae
GCA_022438265.1	6	SAMN15869016	ARLG-3261	Klebsiella pneumoniae
GCA_022438245.1	2	SAMN15869015	ARLG-3260	Klebsiella pneumoniae
GCA_022438225.1	2	SAMN17131912	ARLG-3264	Klebsiella pneumoniae
GCA_022438205.1	7	SAMN17131913	ARLG-3266	Klebsiella pneumoniae
GCA_022438185.1	2	SAMN17131914	ARLG-4837	Klebsiella pneumoniae
GCA_022438165.1	5	SAMN17131915	ARLG-4839	Klebsiella pneumoniae
GCA_022438145.1	2	SAMN15869020	ARLG-4842	Klebsiella pneumoniae
GCA_022438125.1	3	SAMN15869022	ARLG-4844	Klebsiella pneumoniae
GCA_022438105.1	7	SAMN15869021	ARLG-4843	Klebsiella pneumoniae
GCA_022438085.1	4	SAMN17131916	ARLG-4845	Klebsiella pneumoniae
GCA_022438065.1	5	SAMN15869023	ARLG-4847	Klebsiella pneumoniae
GCA_022438045.1	3	SAMN17131917	ARLG-4848	Klebsiella pneumoniae
GCA_022438025.1	3	SAMN15869024	ARLG-4849	Klebsiella pneumoniae
GCA_022438005.1	8	SAMN15869025	ARLG-4850	Klebsiella pneumoniae
GCA_022437985.1	7	SAMN15869026	ARLG-4851	Klebsiella pneumoniae
GCA_022437965.1	5	SAMN15868198	ARLG-3520	Klebsiella pneumoniae
GCA_022433565.1	2	SAMN17131930	ARLG-8054	Klebsiella quasipneumoniae

SRA Data Details

Parameter	Value
Data volume, Gbases	2,112
Data volume, Tbytes	0.99

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Whole genome sequencing data in the USA from Consortium on Resistance Against Carbapenems in Klebsiella and other Enterobacterales 2 (CRACKLE-2) Study: Genome sequencing and assembly

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