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Results
BCW_4320 | Crow
BCW_6929 | Goat | ST-460 *
BCW_6891 | Chicken | ST-460
C. jejuni RM1221
C. jejuni subsp. jejuni S3
BCW_6461 | Crow | ST-354
Chicken | ST-607
C.jejuni subsp. jejuni CG8421
BCW_6468 | Crow | ST-464
BCW_6462 | Crow | ST-353
BCW_4456 | Primate | ST-48
C. jejuni 32488
BCW_6922 | Sheep | ST-21 *
BCW_6924 | Sheep | ST-21 *
BCW_6920 | Cow | ST-21 *
BCW_6921 | Cow | ST-21 *
BCW_6928 | Sheep | ST-21 *
C. jejuni subsp. jejuni IA3902 | Sheep | ST-21 *
BCW_6926 | Sheep | ST-21 *
BCW_6925 | Sheep | ST-21 *
BCW_6927 | Sheep | ST-21 *
BCW_6930 | Sheep | ST-21 *
C. jejuni subsp. jejuni NCTC 11168
C. jejuni subsp. jejuni NCTC 11168-BN148
C. jejuni subsp. jejuni 00-2544
C. jejuni subsp. jejuni 00-2425
C. jejuni subsp. jejuni 00-2426
C. jejuni subsp. jejuni PT14
BCW_6919 | Sheep | ST-21 *
BCW_6872 | Crow | ST-21
BCW_6897 | Crow | ST-257
1.0
Genomic Comparisons and Zoonotic Potential of Campylobacter
Isolates
Allison M. Weis, Dylan B. Storey, Conor C. Taff, Kristen Clothier, Andrea Townsend, Bart C. Weimer
University of California, Davis
ABSTRACT
Campylobacter
• Campylobacter are
gram-negative spiral rod
bacteria
• cause gastroenteritis
in humans
• Gullane Barre
• Abortion in some animals
• In the United States Campylobacterosis is estimated to affect 1.3
million people each year (CDC)
• C. jejuni most common agent
• Campylobacter can be zoonotic, crossing from birds, cows, pigs
etc into humans with symptoms including fever, abdominal
cramping, and bloody diarrhea
I would like to acknowledge Dr. Bart Weimer, Dr. Andrea
Townsend. Thanks to the 100K team. Thanks to
theMicrobiology Graduate Group at UC Davis.
100K Genome Project Results
*Culture-conrmed infections per 100,000 population
† 2006-2008 were the baseline years used to establish Healthy People 2020 targets
§ Shiga toxin-producing Eschericha coli O157
CS255461-B May 2015
PROGRESS REPORT
2014 FOOD SAFETY
Campylobacter
Pathogen
E. coli O157§
Listeria
Salmonella
Vibrio
Yersinia
Healthy People 2020 target rate Change compared with 2006-2008†
13.45
0.92
0.24
15.45
0.45
0.28
2014 rate*
No change
No change
13% increase
52% increase
32% decrease
22% decrease
8.5
0.6
0.2
11.4
0.2
0.3
For more information, visit www.cdc.gov/foodnet
Unique'Transmission'Model'of'Campylobacter-
!"#$%&$'(%)*$+,$-./+*0$12$3.(4%($C.#jejuni#
16S$rRNA,$two$groups$of$C.#jejuni#emerged:$
crow$specific$clade$(one$host$–$crow$only)$
Generalist$group:$$
Humans$&$crow$same$16s$type$$
Many$of$these$isolates$had$virulence$factors$
20%$had$cdtAIC$presence,$46%$had$flaA#by$PCR$(56+*$67$.8$9:;<$2=>)$
$
$?@6,$AB6*C%,*D$
53.7$are$these$C.#jejuni#isolates?$$
How$do$they$'%E@.(6$to$other$C.#jejuni?$
2(6$'(%)*$7(.,*&6((+,F$C.#jejuni#7%$%736($3%*7*G$
#
Bank
culture
Isolate
DNA
Library construction
Make
library
Assembly
Annotation
Analysis
Short read technologies
Long read technologies
Sequence
library
1.0
BCW_6452 | C. jejuni | primate | ST-49
BCW_3797 | C. jejuni | crow | ST-508
BCW_4224 | C. jejuni | crow | ST-45
BCW_4456 | C. jejuni | primate | ST-48
C. jejuni subsp. jejuni IA3902 | sheep | ST-21
C. jejuni subsp. jejuni 81116 | human | ST-238
C. jejuni subsp. jejuni M1 | human | ST-45
BCW_6468 | C. jejuni | crow | ST-464
BCW_4452 | C. jejuni | primate | ST-45
BCW_6451 | C. jejuni | primate | ST-49
C. jejuni subsp. jejuni NCTC 11168 | human | ST-21
BCW_4230 | C. jejuni | crow | ST-45
C. jejuni subsp. jejuni ICDCCJ07001 | human GBS | ST-362
BCW_6872 | C. jejuni | crow | ST-21
BCW_6461 | C. jejuni | crow | ST-354
BCW_4319 | C. jejuni | crow | ST-42
BCW_3803 | C. jejuni | crow | ST-42
BCW_6462 | C. jejuni | crow | ST-353
BCW_4221 | C. jejuni | crow | ST-45
BCW_4459 | C. jejuni | primate | ST-403
Hypothesis:
Genomics gives high resolution
view to define zoonotic
transmission between birds, wild
life, agriculture
C. jejuni
Generalists
C. jejuni
Crow Only
BCW_4319 | Crow | ST-42
BCW_3803 | Crow
CP000538 | C. jejuni subsp. jejuni 81-176 | Human | ST-42
AASL01000001 | C. jejuni subsp. jejuni 81-176 | Human | ST-42
CP002029 | C. jejuni subsp. jejuni ICDCCJ07001 | Human GBS | ST-362
BCW_6952 | Primate
BCW_6910 | Primate | ST-403
BCW_6956 | Primate | ST-403
BCW_4459 | Primate | ST-403
BCW_7438 | Primate | ST-403
BCW_6954 | Primate
BCW_6451 | Primate
BCW_6452 | Primate
BCW_4320 | Crow
BCW_6929 | Goat | ST-460
BCW_6891 | Chicken | ST-460
CP000025 | C. jejuni RM1221 | Chicken | ST-354
CP001960 | C. jejuni subsp. jejuni S3 | ST-354
BCW_6461 | Crow | ST-354
BCW_6907 | Chicken | ST-607
CP005388 | C.jejuni subsp. jejuni CG8421
BCW_6468 | Crow | ST-464
BCW_6462 | Crow | ST-353
BCW_4456 | Primate | ST-48
CP006006 | C. jejuni 32488
BCW_6922 | Sheep | ST-21
BCW_6924 | Sheep | ST-21
BCW_6920 | Cow | ST-21
BCW_6921 | Cow | ST-21
BCW_6928 | Sheep | ST-21
CP001876 | C. jejuni subsp. jejuni IA3902 | ST-21
BCW_6926 | Sheep | ST-21
BCW_6925 | Sheep | ST-21
BCW_6927 | Sheep | ST-21
BCW_6930 | Sheep | ST-21
AL111168 | C. jejuni subsp. jejuni NCTC 11168 | ST-21
HE978252 | C. jejuni subsp. jejuni NCTC 11168-BN148 | ST-21
CP006709 | C. jejuni subsp. jejuni 00-2544
CP006729 | C. jejuni subsp. jejuni 00-2425
CP006708 | C. jejuni subsp. jejuni 00-2426
CP003871 | C. jejuni subsp. jejuni PT14 | ST-21
BCW_6919 | Sheep | ST-21
BCW_6872 | Crow | ST-21
BCW_6897 | Crow | ST-257
BCW_5913 | Primate | ST-179
BCW_6898 | Crow | ST-45
BCW_6899 | Crow | ST-45
BCW_4452 | Primate | ST-45
CP000814 | C.jejuni subsp. jejuni 81116 | ST-283
CP001900 | C. jejuni subsp. jejuni M1 | ST-45
BCW_3782 | Crow | ST-45
HG428754 | C. jejuni 4031
BCW_4224 | Crow | ST-45
BCW_4329 | Crow | ST-45
BCW_4221 | Crow | ST-45
BCW_4230 | Crow | ST-45
BCW_6902 | Crow
BCW_6953 | Primate
BCW_6959 | Primate
BCW_6896 | Crow
1.0
B
A
BCW_4452 | primate
BCW_4319 | crow
C. jejuni NCTC 11168 | human
BCW_3797 | crow
BCW_6872 | crow
BCW_6452 | primate
BCW_6461 | crow
A
Whole'Genome'Distance''
Virulence'
Antibiotic''Resistance''Genes'
Abortion'Isolates'
Cytolethal''Distending''Toxin'C'
Table&2:&Analysis&of&Major&Virulence&Factors&in&Campylobacter&draft&genomes
cdtA cdtB cdtC ciaB flaC cadF jlpA porA pebA
96% 95% 97% 100% 100% 100% 100% 100% 100%
virB1 virB2 virB3 virB4 virB6 virB8 virB9 virB10 virB11
12% 17% 13% 31% 21% 21% 8% 20% 12%
Type%IV%Secretion%System
CDT%Toxins
Invasion
Adherence
Genome'Structure'
Acknowledgements
INTRODUCTION
BCW_3783 - Cytolethal distending toxin A/C family protein CDS
BCW_3793 - Cytolethal distending toxin A/C family protein CDS
BCW_4217 - Cytolethal distending toxin A/C family protein CDS
BCW_6951 - Cytolethal distending toxin A/C family protein CDS
BCW_6450- Cytolethal distending toxin A/C family protein CDS
BCW_6449 - Cytolethal distending toxin A/C family protein CDS
BCW_4454 - Cytolethal distending toxin A/C family protein CDS
BCW_5918 - Cytolethal distending toxin A/C family protein CDS
BCW_4455 - Cytolethal distending toxin A/C family protein CDS
BCW_6447 - Cytolethal distending toxin A/C family protein CDS
BCW_6448 - Cytolethal distending toxin A/C family protein CDS
BCW_6861 - Cytolethal distending toxin A/C family protein CDS
BCW_6957 - Cytolethal distending toxin A/C family protein CDS
BCW_7432- Cytolethal distending toxin A/C family protein CDS
BCW_7435 - Cytolethal distending toxin A/C family protein CDS
BCW_4453 - Cytolethal distending toxin A/C family protein CDS
BCW_4457 - Cytolethal distending toxin A/C family protein CDS
BCW_5818- Cytolethal distending toxin A/C family protein CDS
BCW_6860 - Cytolethal distending toxin A/C family protein CDS
BCW_6914 - Cytolethal distending toxin A/C family protein CDS
BCW_6948 - Cytolethal distending toxin A/C family protein CDS
BCW_6950 - Cytolethal distending toxin A/C family protein CDS
BCW_7437- Cytolethal distending toxin A/C family protein CDS
BCW_7442 - Cytolethal distending toxin A/C family protein CDS
BCW_5917 - Cytolethal distending toxin A/C family protein CDS
BCW_6955 - Cytolethal distending toxin A/C family protein CDS
BCW_7444 - Cytolethal distending toxin A/C family protein CDS
BCW_7434 - Cytolethal distending toxin A/C family protein CDS
BCW_7433 - Cytolethal distending toxin A/C family protein CDS
BCW_6958 - Cytolethal distending toxin A/C family protein CDS
BCW_6949 - Cytolethal distending toxin A/C family protein CDS
BCW_6946 - Cytolethal distending toxin A/C family protein CDS
BCW_5914 - Cytolethal distending toxin A/C family protein CDS
BCW_6913 - Cytolethal distending toxin A/C family protein CDS
BCW_4459 - Cytolethal distending toxin A/C family protein CDS
BCW_6910 - Cytolethal distending toxin A/C family protein CDS
BCW_6952 - Cytolethal distending toxin A/C family protein CDS
BCW_6956 - Cytolethal distending toxin A/C family protein CDS
BCW_7438 - Cytolethal distending toxin A/C family protein CDS
BCW_6954 - Cytolethal distending toxin A/C family protein CDS
BCW_7460 - Cytolethal distending toxin A/C family protein CDS
BCW_3803 - Cytolethal distending toxin A/C family protein CDS
BCW_4319 - Cytolethal distending toxin A/C family protein CDS
BCW_4456 - Cytolethal distending toxin A/C family protein CDS
BCW_5913 - Cytolethal distending toxin A/C family protein CDS
BCW_6451 - Cytolethal distending toxin A/C family protein CDS
BCW_6452 - Cytolethal distending toxin A/C family protein CDS
BCW_6462 - Cytolethal distending toxin A/C family protein CDS
BCW_6468 - Cytolethal distending toxin A/C family protein CDS
BCW_6872 - Cytolethal distending toxin A/C family protein CDS
BCW_6891 - Cytolethal distending toxin A/C family protein CDS
BCW_6907 - Cytolethal distending toxin A/C family protein CDS
BCW_6919 - Cytolethal distending toxin A/C family protein CDS
BCW_6920 - Cytolethal distending toxin A/C family protein CDS
BCW_6921 - Cytolethal distending toxin A/C family protein CDS
BCW_6922 - Cytolethal distending toxin A/C family protein CDS
BCW_6924 - Cytolethal distending toxin A/C family protein CDS
BCW_6925 - Cytolethal distending toxin A/C family protein CDS
BCW_6926 - Cytolethal distending toxin A/C family protein CDS
BCW_6927 - Cytolethal distending toxin A/C family protein CDS
BCW_6928 - Cytolethal distending toxin A/C family protein CDS
BCW_6929 - Cytolethal distending toxin A/C family protein CDS
BCW_6930 - Cytolethal distending toxin A/C family protein CDS
BCW_7692 - Cytolethal distending toxin A/C family protein CDS
CP001876 - cdtC CDS
BCW_6897 - Cytolethal distending toxin A/C family protein CDS
CP002029 - cytolethal distending toxin C CDS
BCW_6902 - Cytolethal distending toxin A/C family protein CDS
BCW_6953 - Cytolethal distending toxin A/C family protein CDS
BCW_6959 - Cytolethal distending toxin A/C family protein CDS
BCW_4460 - Cytolethal distending toxin A/C family protein CDS
BCW_4461 - Cytolethal distending toxin A/C family protein CDS
BCW_4227 - Cytolethal distending toxin A/C family protein CDS
BCW_3789 - Cytolethal distending toxin A/C family protein CDS
BCW_3784 - Cytolethal distending toxin A/C family protein CDS
BCW_3785 - Cytolethal distending toxin A/C family protein CDS
BCW_6871 - Cytolethal distending toxin A/C family protein CDS
BCW_6881 - Cytolethal distending toxin A/C family protein CDS
BCW_3797 - Cytolethal distending toxin A/C family protein CDS
BCW_3804 - Cytolethal distending toxin A/C family protein CDS
BCW_6899 - Cytolethal distending toxin A/C family protein CDS
BCW_6898 - Cytolethal distending toxin A/C family protein CDS
BCW_4452 - Cytolethal distending toxin A/C family protein CDS
BCW_4329 - Cytolethal distending toxin A/C family protein CDS
BCW_4230 - Cytolethal distending toxin A/C family protein CDS
BCW_4224 - Cytolethal distending toxin A/C family protein CDS
BCW_3782 - Cytolethal distending toxin A/C family protein CDS
BCW_4221 - Cytolethal distending toxin A/C family protein CDS
BCW_6461 - Cytolethal distending toxin A/C family protein CDS
CP000025 - cdtC gene
BCW_3781- Cytolethal distending toxin A/C family protein CDS
BCW_3786 - Cytolethal distending toxin A/C family protein CDS
BCW_3787 - Cytolethal distending toxin A/C family protein CDS
BCW_3790 - Cytolethal distending toxin A/C family protein CDS
BCW_3792 - Cytolethal distending toxin A/C family protein CDS
BCW_3794 - Cytolethal distending toxin A/C family protein CDS
BCW_3800 - Cytolethal distending toxin A/C family protein CDS
BCW_3802 - Cytolethal distending toxin A/C family protein CDS
BCW_3805 - Cytolethal distending toxin A/C family protein CDS
BCW_3810 - Cytolethal distending toxin A/C family protein CDS
BCW_4220 - Cytolethal distending toxin A/C family protein CDS
BCW_4222 - Cytolethal distending toxin A/C family protein CDS
BCW_4225 - Cytolethal distending toxin A/C family protein CDS
BCW_4228 - Cytolethal distending toxin A/C family protein CDS
BCW_4229 - Cytolethal distending toxin A/C family protein CDS
BCW_4231 - Cytolethal distending toxin A/C family protein CDS
BCW_4322 - Cytolethal distending toxin A/C family protein CDS
BCW_4333 - Cytolethal distending toxin A/C family protein CDS
BCW_4337 - Cytolethal distending toxin A/C family protein CDS
BCW_4338 - Cytolethal distending toxin A/C family protein CDS
BCW_6454 - Cytolethal distending toxin A/C family protein CDS
BCW_6455 - Cytolethal distending toxin A/C family protein CDS
BCW_6459 - Cytolethal distending toxin A/C family protein CDS
BCW_6464 - Cytolethal distending toxin A/C family protein CDS
BCW_6877 - Cytolethal distending toxin A/C family protein CDS
BCW_6882 - Cytolethal distending toxin A/C family protein CDS
BCW_6883 - Cytolethal distending toxin A/C family protein CDS
BCW_6886 - Cytolethal distending toxin A/C family protein CDS
BCW_6460 - Cytolethal distending toxin A/C family protein CDS
BCW_6467 - Cytolethal distending toxin A/C family protein CDS
BCW_6476 - Cytolethal distending toxin A/C family protein CDS
BCW_6875 - Cytolethal distending toxin A/C family protein CDS
BCW_6888 - Cytolethal distending toxin A/C family protein CDS
BCW_6900 - Cytolethal distending toxin A/C family protein CDS
BCW_6901 - Cytolethal distending toxin A/C family protein CDS
BCW_6904 - Cytolethal distending toxin A/C family protein CDS
BCW_4335 - Cytolethal distending toxin A/C family protein CDS
BCW_4326 - Cytolethal distending toxin A/C family protein CDS
BCW_4325 - Cytolethal distending toxin A/C family protein CDS
BCW_4323- Cytolethal distending toxin A/C family protein CDS
BCW_4223- Cytolethal distending toxin A/C family protein CDS
BCW_4317 - Cytolethal distending toxin A/C family protein CDS
BCW_6885 - Cytolethal distending toxin A/C family protein CDS
BCW_6466 - Cytolethal distending toxin A/C family protein CDS
BCW_6887 - Cytolethal distending toxin A/C family protein CDS
BCW_6457 - Cytolethal distending toxin A/C family protein CDS
BCW_4226 - Cytolethal distending toxin A/C family protein CDS
BCW_4219 - Cytolethal distending toxin A/C family protein CDS
BCW_4216 - Cytolethal distending toxin A/C family protein CDS
BCW_4218 - Cytolethal distending toxin A/C family protein CDS
BCW_6889 - Cytolethal distending toxin A/C family protein CDS
BCW_6884 - Cytolethal distending toxin A/C family protein CDS
BCW_6465 - Cytolethal distending toxin A/C family protein CDS
BCW_6456 - Cytolethal distending toxin A/C family protein CDS
BCW_6453 - Cytolethal distending toxin A/C family protein CDS
BCW_3798 - Cytolethal distending toxin A/C family protein CDS
BCW_4341 - Cytolethal distending toxin A/C family protein CDS
BCW_6893- Cytolethal distending toxin A/C family protein CDS
BCW_6878 - Cytolethal distending toxin A/C family protein CDS
BCW_6874 - Cytolethal distending toxin A/C family protein CDS
BCW_6873 - Cytolethal distending toxin A/C family protein CDS
BCW_6463 - Cytolethal distending toxin A/C family protein CDS
BCW_6458 - Cytolethal distending toxin A/C family protein CDS
BCW_4321 - Cytolethal distending toxin A/C family protein CDS
BCW_3807 - Cytolethal distending toxin A/C family protein CDS
BCW_3799 - Cytolethal distending toxin A/C family protein CDS
BCW_6880 - Cytolethal distending toxin A/C family protein CDS
BCW_6879 - Cytolethal distending toxin A/C family protein CDS
BCW_3788 - Cytolethal distending toxin A/C family protein CDS
BCW_6876 - Cytolethal distending toxin A/C family protein CDS
0.01
Crow Only
C. jejuni
Generalists
C. jejuni
C. coli
C. lari
A
B
BCW_3783
BCW_3793
BCW_4217
BCW_6951
BCW_6450
BCW_4454
BCW_5918
BCW_7434
BCW_7433 BCW_6958
BCW_6949
BCW_6946
BCW_5914
BCW_6913
BCW_4455
BCW_6447
BCW_6448
BCW_6861
BCW_6957
BCW_7432
BCW_7435
BCW_5917
BCW_6955
BCW_4453
BCW_4457
BCW_5818
BCW_6860
BCW_6914
BCW_6948
BCW_6950
BCW_7437
BCW_7442
BCW_6904
BCW_4335
BCW_4326
BCW_4325
BCW_4323
BCW_4223
BCW_4317
BCW_6885
BCW_6466
BCW_6887
BCW_6457
BCW_4226
BCW_4219
BCW_4216
BCW_4218
BCW_6889
BCW_6884
BCW_6465
BCW_6456
BCW_6453
BCW_3798
BCW_4341
BCW_6893
BCW_6878
BCW_6874
BCW_6873
BCW_6463
BCW_6458
BCW_4321 BCW_3807
BCW_3799
BCW_6880
BCW_6879
BCW_3788
BCW_6876 BCW_6460
BCW_6467
BCW_6476
BCW_6875
BCW_6888
BCW_6900
BCW_6901
BCW_3781
BCW_3786
BCW_3787
BCW_3790
BCW_3792
BCW_3794
BCW_3800
BCW_3802
BCW_3805
BCW_3810
BCW_4220
BCW_4222
BCW_4225 BCW_4228
BCW_4229
BCW_4322
BCW_4333
BCW_4337
BCW_4338 BCW_6454
BCW_6455
BCW_6459
BCW_6464
BCW_6877
BCW_6882
BCW_6883
BCW_6886
BCW_6871 BCW_3789
BCW_3784
BCW_3785
BCW_6881
CP002029
BCW_4459
BCW_6910
BCW_6956
BCW_7438
BCW_4460
BCW_4461
BCW_3797
BCW_3804
BCW_6899
BCW_6898
BCW_4452
BCW_4230
BCW_4224
BCW_3782
BCW_4221
BCW_6897
BCW_6954
BCW_3803
BCW_4319
BCW_4456
BCW_5913
BCW_6451
BCW_6452
BCW_6462
BCW_6468
BCW_6872
BCW_6891
BCW_6907
BCW_6919
BCW_6920
BCW_6921
BCW_6922
BCW_6924
BCW_6925
BCW_6926
BCW_6927
BCW_6928
BCW_6929
BCW_6930 CP001876
CP000025
BCW_6953
BCW_6959
BCW_6902
I_3
F_3
I_4
F_4
I_5
S_5
I_7
F_7
I_8
F_8
I_9
I_10
F_10
I_13
F_13
I_14
S_14
K_15
F_15
S_16
D_17
I_17
S_17
D_18
P_18 D_19
S_19
I_20
P_20
D_21
G_21
K_24
S_24
D_28
P_28
I_30
F_30
S_31
F_40
S_40
P_43
K_46
D_46
K_49 D_49
K_50
D_50
I_51
P_51
K_52
D_52
I_52
D_57
I_57
F_57
I_63
D_64
S_64
D_69
K_72
D_72
I_72
H_73
I_73 G_74
K_75
D_75
D_76
I_76
P_78
I_85
S_85
D_86
S_86
K_88
D_88
D_89
G_89
D_90
S_90
D_98
S_98
D_99
S_99
K_100
G_100
F_101
S_101
G_104
S_104
K_108
D_108
K_112
D_112
K_115
S_115
I_125
S_125
D_127
S_127
G_128
S_128
S_129
I_136
S_136
D_137
I_137
D_138
G_138
G_139
S_139
K_140
D_140
K_144
I_144
S_144
I_145
S_145
F_147
P_147
P_149
S_149
D_150
S_150
P_152
K_155
D_155
D_160
G_160
D_161
P_161
C_162
I_163
S_163
K_166
P_166
I_167
S_167
I_168
F_168
I_169
F_169
I_170
S_170
D_171
I_171
D_173
S_173
K_174 D_174
I_176
F_176
I_177
F_177
I_178
F_178
P_181
I_183
S_183
D_184
P_187
D_189
F_189
−20
−10
0
10
20
−20 −10 0 10 20
PC1
PC2
factor
a
a
a
a
a
a
a
Chicken
Cow
Crow
GenBank
Goat
Primate
Sheep
C