Whole genome sequencing versus traditional genotyping for investigation of a Mycobacterium tuberculosis outbreak: a longitudinal molecular epidemiological study.

BACKGROUND
Understanding Mycobacterium tuberculosis (Mtb) is very important to guide the transmission control strategy efficiently. typing traditional sports do not have enough discriminatory power to overcome the great plague. Here, we examine the potential of using the next-generation genome sequencing to identify the transmission chains associated outbreaks.

RESULTS
Over the long term (1997-2010) prospective, population-based molecular epidemiological surveillance consisting of a total of 2,301 patients, we identified a large outbreak caused by a strain of Mtb lineage Haarlem. The main measure performance results of whole genome sequencing (WGS) is the analysis of the degree of correlation with the analysis WGS contact tracing data and spatio-temporal distribution of plague cases. WGS analysis of 86 isolates revealed 85 single nucleotide polymorphisms (SNPs), grouping plague genome into seven groups (two to 24 isolates each), plus 36 unique SNP profile. WGS Results show that the first outbreak isolates were detected in 1997 were counterfeit clustered by classical genotype.

In 1998, one of the clones (called “Hamburg clone”) began to grow, apparently independently of differences in social environments initial case. genome-based grouping patterns that fit well with contact tracing data and geographic distribution of cases of grouping patterns based on the classic genotype. A maximum of three SNPs identified in the eight confirmed the chain of transmission from human to human, which involved 31 patients. We estimate the Mtb genome evolution rate of 0.4 mutations per genome per year. This level indicates that Mtb grown in natural hosts with a doubling time of about 22 h (400 generations per year). Based on genome variation is found, the emergence of clones Hamburg is dated back to the period between 1993 and 1997, then shortly before the discovery of the outbreak through epidemiological surveillance.

CONCLUSION
Our findings indicate that WGS is superior to conventional genotyping for tracking and investigating Mtb pathogenic micro-epidemics. WGS provides Mtb genome size evolution over time in the context of the natural host.

Whole genome sequencing versus traditional genotyping for investigation of a Mycobacterium tuberculosis outbreak: a longitudinal molecular epidemiological study.
Whole genome sequencing versus traditional genotyping for investigation of a Mycobacterium tuberculosis outbreak: a longitudinal molecular epidemiological study.

Highly multiplexed molecular inversion probe genotyping: SNP targeted more than 10,000 genotypes in a single test tube.

Large-scale genetic studies are very dependent on the multiplex SNP tests efficient and scalable. In this study, we report the development of Molecular Inversion Probe technology with four-color, single-array detection, applied to large scale genotyping of up to 12,000 SNPs per reaction. While generating 38 429 SNPs tests using this technology in a population of 30 trios of the family panel Humain Center d’Etude polymorphisms as part of the International HapMap project, we set up a conversion rate of approximately 90% of SNP with a concordance rate of> 99.6% and the level of completeness of> 98% to test the level of multiplexing up to 12,000plex.

B-27 Serum-Free Supplement (50x)

abx082466-10ml 10 ml
EUR 328

CORNING® T-CELL CULTURE SUPPLEMENT WITH CONA (IL-2 CULTURE SUPPLEMENT), RAT, 100ML, 1/PACK

354115 1/pk
EUR 582
Description: Cell Culture Reagents; Growth Supplements - DL

Endothelial Cell Growth Supplement (ECGS),From Bovine

CA080-005 5mg Ask for price

Endothelial Cell Growth Supplement (ECGS),From Bovine

CA080-050 50mg Ask for price

Reagent for Total Exosome Isolation (Culture Media Supplement)

EIR-02 50 ml
EUR 2071
Description: This product is used for isolating exosomes from culture media supplement based on chemical precipitation isolation method.

Exosome-depleted FBS Media Supplement Heat Inactivated - USA Certified      

EXO-FBSHI-250A-1 250 ml
EUR 893

Exosome-depleted FBS Media Supplement Heat Inactivated - USA Certified      

EXO-FBSHI-50A-1 50 ml
EUR 255

Total Exosome RNA Extraction Kit (Biological Fluids/Culture Media Supplement)

EIRK-03 20 reactions
EUR 2817
Description: This product is a useful tool for the isolation and efficient total RNA (miRNA and mRNAs) extraction from the total exosome population from human biofluids or cell culture media.

CORNING® ENDOTHELIAL CELL GROWTH SUPPLEMENT (ECGS), 15MG, 1/PACK

354006 1/pk
EUR 133
Description: Cell Culture Reagents; Growth Supplements - DL

CORNING® IL-3 CULTURE SUPPLEMENT, MOUSE, 25ML, 1/PACK

354040 1/pk
EUR 277
Description: Cell Culture Reagents; Cytokines Growth Factors - DL

CORNING® ITS PREMIX UNIVERSAL CULTURE SUPPLEMENT, 20ML, 1/PACK

354350 1/pk
EUR 401
Description: Cell Culture Reagents; Growth Supplements - DL

CORNING® ITS PREMIX UNIVERSAL CULTURE SUPPLEMENT, 5ML, 1/PACK

354351 1/pk
EUR 154
Description: Cell Culture Reagents; Growth Supplements - DL

CORNING® ITS+ PREMIX UNIVERSAL CULTURE SUPPLEMENT, 20ML, 1/PACK

354352 1/pk
EUR 136
Description: Cell Culture Reagents; Growth Supplements - DL

CORNING® ENDOTHELIAL CELL GROWTH SUPPLEMENT (ECGS), 100MG, 1/PACK

356006 1/pk
EUR 422
Description: Cell Culture Reagents; Growth Supplements - DL

Yeast Extract

G0961 500g
EUR 81.32

Yeast Extract

abx082370-500g 500 g
EUR 217

Yeast Extract

Y2007-050 500g
EUR 182

Yeast Extract

Y2007-100 1Kg
EUR 246

Yeast Extract

Y2007-250 2.5Kg Ask for price

Yeast Extract

Y2007-500 5Kg Ask for price

Yeast Extract

A2540-1000000 1000 g
EUR 216
Description: microbial mediawater soluble portion of autolyzed yeast with intact B-complex vitaminsstore at room temperature

Yeast Extract

A2540-500000 500 g
EUR 142
Description: microbial mediawater soluble portion of autolyzed yeast with intact B-complex vitaminsstore at room temperature

Yeast Extract

146 500 g
EUR 87

YEAST EXTRACT

Y25-101-10kg 10 kg
EUR 772

YEAST EXTRACT

Y25-101-2Kg 2 Kg
EUR 207

YEAST EXTRACT

Y25-101-500g 500 g
EUR 93

CORNING® NU-SERUM™ GROWTH MEDIUM SUPPLEMENT, 100ML, 1/PACK

355100 1/pk
EUR 100
Description: Cell Culture Reagents; Growth Supplements - DL

CORNING® NU-SERUM™ GROWTH MEDIUM SUPPLEMENT, 500ML, 1/PACK

355500 1/pk
EUR 194
Description: Cell Culture Reagents; Growth Supplements - DL

Recombinant Yeast IDH1 Protein, Untagged, Yeast-1mg

QP10670-1mg 1mg
EUR 155

Recombinant Yeast IDH1 Protein, Untagged, Yeast-50mg

QP10670-50mg 50mg
EUR 1043

Recombinant Yeast IDH1 Protein, Untagged, Yeast-5mg

QP10670-5mg 5mg
EUR 201

CORNING® NU-SERUM™ IV GROWTH MEDIUM SUPPLEMENT, 500ML, 1/PACK

355504 1/pk
EUR 367
Description: Cell Culture Reagents; Growth Supplements - DL

500 ML RPMI 1640, 1X WITH GLUTAGRO™ SUPPLEMENT AND PHENOL RED

10-104-CV 500 mL/pk
EUR 125
Description: Media Catalog; Classical Media

Recombinant Yeast GLRX1 Yeast Protein, His, E.coli-10ug

QP11990-10ug 10ug
EUR 155

Recombinant Yeast GLRX1 Yeast Protein, His, E.coli-1mg

QP11990-1mg 1mg
EUR 1561

Recombinant Yeast GLRX1 Yeast Protein, His, E.coli-50ug

QP11990-50ug 50ug
EUR 201

Recombinant Yeast GLRX2 Yeast Protein, His, E.coli-10ug

QP11991-10ug 10ug
EUR 155

Recombinant Yeast GLRX2 Yeast Protein, His, E.coli-1mg

QP11991-1mg 1mg
EUR 1561

Recombinant Yeast GLRX2 Yeast Protein, His, E.coli-50ug

QP11991-50ug 50ug
EUR 201

Recombinant Yeast GLC8

7-05266 10µg Ask for price

Recombinant Yeast GLC8

7-05267 50µg Ask for price

Recombinant Yeast GLC8

7-05268 1mg Ask for price

Recombinant Yeast Thioredoxin

7-06895 5µg Ask for price

Recombinant Yeast Thioredoxin

7-06896 20µg Ask for price

Recombinant Yeast Thioredoxin

7-06897 1mg Ask for price

Yeast Thioredoxin Protein

20-abx260628
  • EUR 3042.00
  • EUR 328.00
  • EUR 230.00
  • 1 mg
  • 20 ug
  • 5 ug

IL4 Yeast Protein

20-abx262078
  • EUR 328.00
  • EUR 4880.00
  • EUR 230.00
  • 10 ug
  • 1 mg
  • 2 µg

IL2 Yeast Protein

20-abx262079
  • EUR 328.00
  • EUR 4880.00
  • EUR 230.00
  • 10 ug
  • 1 mg
  • 2 µg

FNDC5, Yeast Protein

20-abx262686
  • EUR 328.00
  • EUR 6397.00
  • EUR 230.00
  • 10 ug
  • 1 mg
  • 2 µg

Insulin Yeast Protein

20-abx262991
  • EUR 885.00
  • EUR 328.00
  • EUR 230.00
  • 100 mg
  • 10 mg
  • 2 mg

Trypsin, Yeast Protein

20-abx263463
  • EUR 328.00
  • EUR 6397.00
  • EUR 230.00
  • 10 ug
  • 1 mg
  • 2 µg

Yeast AHA1 Protein

SPR-314A 0.05 mg
EUR 261
Description: His tagged recombinant yeast AHA1 Protein expressed in E. coli for WB, SDS-PAGE, Functional Assay. The biological activity of this protein has not yet been tested.

Yeast AHA1 Protein

SPR-314B 0.1 mg
EUR 377
Description: His tagged recombinant yeast AHA1 Protein expressed in E. coli for WB, SDS-PAGE, Functional Assay. The biological activity of this protein has not yet been tested.

Yeast AHA1 Protein

SPR-314C 2x0.1 mg
EUR 564
Description: His tagged recombinant yeast AHA1 Protein expressed in E. coli for WB, SDS-PAGE, Functional Assay. The biological activity of this protein has not yet been tested.

Yeast extract, powder

GE4420-100G 100 g
EUR 43

Yeast extract, powder

GE4420-1KG 1 kg
EUR 110

Yeast extract, powder

GE4420-250G 250 g
EUR 54

Yeast extract, powder

GE4420-500G 500 g
EUR 78

Recombinant (yeast) Hirudin

RP-820 10 ug
EUR 286

Thioredoxin Reductase, Yeast

LF-P0009 0.5 mg
EUR 202
Description: Thioredoxin Reductase, Yeast protein

Thioredoxin 1, Yeast

LF-P0036 0.5 mg
EUR 303
Description: Thioredoxin 1, Yeast protein

Thioredoxin 2, Yeast

LF-P0052 0.5 mg
EUR 303
Description: Thioredoxin 2, Yeast protein

Glutathione Reductase, Yeast

LF-P0071 0.5 mg
EUR 202
Description: Glutathione Reductase, Yeast protein

YEAST NITROGEN BASE

Y25-104-10kg 10 kg
EUR 5682

YEAST NITROGEN BASE

Y25-104-2kg 2kg
EUR 1274

YEAST NITROGEN BASE

Y25-104-500g 500 g
EUR 383

Y187 Yeast Strains

S0057 100 ul
EUR 365

Y2HGold Yeast Strains

S0058 100 ul
EUR 365

X33 Yeast Strains

S0059 100 ul
EUR 365

KM71 Yeast Strains

S0060 100 ul
EUR 365

INVSC1 Yeast Strains

S0061 100 ul
EUR 365

BY4742 Yeast Strains

S0062 100 ul
EUR 365

AH109 Yeast Strains

S0063 100 ul
EUR 365

Y1HGold Yeast Strains

S0064 100 ul
EUR 365

BY4741 Yeast Strains

S0065 100 ul
EUR 365

GS115 Yeast Strains

S0066 100 ul
EUR 365

NMY51 Yeast Strains

S0094 100 ul
EUR 365

KM71H Yeast Strains

S0100 100 ul
EUR 365

ATCC9080 Yeast Strains

S0109 100 ul
EUR 365

EGY48 Yeast Strains

S0112 100 ul
EUR 365

SMD1168 Yeast Strains

S0116 100 ul
EUR 365

EBY100 Yeast Strains

S0117 100 ul
EUR 365

X33 Yeast Strain

STR0059 100 ul
EUR 308

Insulin-Transferrin-Selenium ITS, Insulin-Transferrin-Selenium Supplement (100X), in Earle's Balanced Salts.

ITL03-10ML 10 ml
EUR 112
Description: ITS, Insulin-Transferrin-Selenium Supplement (100X), in Earle's Balanced Salts.

Native Yeast Aldehyde Dehydrogenase

NATE-0901 100u
EUR 378

Native Yeast Alcohol dehydrogenase

NATE-0975 50KU
EUR 270

Yeast Glutaredoxin 2 (Recombinant)

20-abx073039
  • EUR 230.00
  • EUR 1970.00
  • EUR 328.00
  • 10 ug
  • 1 mg
  • 50 ug

Yeast Glutaredoxin 1 (Recombinant)

20-abx073040
  • EUR 230.00
  • EUR 1970.00
  • EUR 328.00
  • 10 ug
  • 1 mg
  • 50 ug

Yeast Thioredoxin Reductase (Recombinant)

20-abx073523
  • EUR 4003.00
  • EUR 328.00
  • EUR 230.00
  • 1 mg
  • 20 ug
  • 5 ug

Recombinant Yeast Thioredoxin Reductase

7-03685 5µg Ask for price

Recombinant Yeast Thioredoxin Reductase

7-03686 20µg Ask for price

Recombinant Yeast Thioredoxin Reductase

7-03687 1mg Ask for price

Recombinant Human Trypsin, Yeast

7-06736 1mg Ask for price

Recombinant Human Trypsin, Yeast

7-06737 5mg Ask for price

Recombinant Human Trypsin, Yeast

7-06738 50mg Ask for price

Recombinant Human Insulin Yeast

7-01120 2mg Ask for price

Furthermore, these individual metrics can be “traded off” and, at the expense of a small portion of the conversion rates, the accuracy can be improved to a very high level. No loss of performance seen when the scale of 6,000plex to 12,000plex the test, it validates the technological capability to suppress cross-reactivity at high multiplex level. These results indicate the suitability of this technology for a comprehensive association study using targeted SNPs in linkage disequilibrium studies indirectly or directly screen for the mutation causes.