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. 2018 Apr 19;6(16):e00250-18. doi: 10.1128/genomeA.00250-18

Draft Genome Sequences of 116 Campylobacter jejuni Strains Isolated from Humans, Animals, Food, and the Environment in Brazil

Miliane Rodrigues Frazão a, Guojie Cao b, Marta Inês Cazentini Medeiros c, Sheila da Silva Duque d, Maria Sanchez Leon b, Marc William Allard b,✉, Juliana Pfrimer Falcão a,✉
PMCID: PMC5908942  PMID: 29674540

ABSTRACT

Campylobacter jejuni is a major zoonotic pathogen that causes foodborne gastroenteritis worldwide. However, clinical cases of campylobacteriosis have been underreported and underdiagnosed in Brazil. Herein, we describe the draft genome sequences of 116 C. jejuni strains isolated from diverse sources in Brazil.

GENOME ANNOUNCEMENT

Campylobacter jejuni has emerged as the most common bacterial cause of foodborne disease in humans in many countries (1, 2). In the United States, C. jejuni is the most common cause of diarrhea in humans, which affects over 1.3 million people each year (https://www.cdc.gov/campylobacter/index.html). According to the European Food Safety Authority (EFSA), in 27 European countries in 2016, campylobacteriosis was the most commonly reported gastrointestinal bacterial pathogen in humans, with approximately 246,000 cases reported (3). However, in Brazil, clinical cases of campylobacteriosis have been underreported and underdiagnosed, and large-scale whole-genome sequencing (WGS) data are currently somewhat limited in strains isolated in that country. Here, we announce 116 draft genome sequences from a collection of C. jejuni strains isolated from humans, animals, food, and the environment between 1996 and 2016 in some states of Brazil.

DNA from each strain was extracted according to Frazão et al. (4). Libraries were prepared using 1 ng of genomic DNA with the Nextera XT DNA library preparation kit (Illumina, San Diego, CA, USA). WGS was carried out on a MiSeq or a NextSeq Illumina instrument using a 2 × 250-bp or a 2 × 150-bp paired-end MiSeq or NextSeq reagent kit, respectively (Illumina), according to the manufacturer’s instructions. De novo assemblies were generated from all raw sequence data. The Illumina reads were assembled using CLC Genomics Workbench version 10.0.1 (CLC Bio, Aarhus, Denmark). The contigs for each isolate (draft genomes) were annotated with NCBI’s Prokaryotic Genome Annotation Pipeline (PGAP) (5). The total lengths of the genomes ranged from 1.6 to 1.8 Mb, with an average G+C content of 30.35%, and the number of contigs per assembly for each isolate ranged from 24 to 338.

These data are the first announcements of C. jejuni genomes sequenced from strains isolated in Brazil. Therefore, the data provided will help in understanding the molecular epidemiology of this species isolated from different sources in Brazil. It will also provide support in future research of C. jejuni phylogenetics. More information about the genomic features of those C. jejuni strains will be detailed in future publications.

Accession number(s).

The draft genome sequences for the 116 Campylobacter jejuni isolates reported here are available in GenBank under the accession numbers listed in Table 1.

TABLE 1.

Metadata of the 116 C. jejuni strains isolated from humans, animals, food, and the environment between 1996 and 2016 in Brazil

CFSAN no. GenBank accession no. Isolate name No. of contigs Coverage (×) Genome size (Mb)
CFSAN065294 PIBJ00000000 Cj 01 49 209 1,678,925
CFSAN065295 PIBI00000000 Cj 02 42 96 1,652,297
CFSAN065296 PIBH00000000 Cj 03 48 209 1,668,078
CFSAN065297 PIBG00000000 Cj 04 51 179 1,707,150
CFSAN065298 PIBF00000000 Cj 06 55 306 1,804,215
CFSAN065299 PIBE00000000 Cj 07 49 216 1,802,410
CFSAN065300 PIBD00000000 Cj 09 46 220 1,687,215
CFSAN065301 PIBC00000000 Cj 11 68 263 1,806,596
CFSAN065302 PIBB00000000 Cj 12 48 269 1,734,641
CFSAN065303 PIBA00000000 Cj 13 27 237 1,702,285
CFSAN065305 PIAZ00000000 Cj 15 48 239 1,761,819
CFSAN065306 PIAY00000000 Cj 16 77 275 1,803,006
CFSAN065307 PIAX00000000 Cj 17 118 154 1,769,104
CFSAN065308 PIAW00000000 Cj 18 47 156 1,771,462
CFSAN065309 PIAV00000000 Cj 19 24 242 1,705,617
CFSAN065310 PIAU00000000 Cj 20 51 216 1,772,036
CFSAN065312 PIAT00000000 Cj 22 37 130 1,658,649
CFSAN065313 PIAS00000000 Cj 23 39 166 1,636,095
CFSAN065314 PIAR00000000 Cj 24 37 222 1,637,517
CFSAN065315 PIAQ00000000 Cj 25 190 221 1,654,857
CFSAN065316 PITT00000000 Cj 26 31 176 1,595,918
CFSAN065317 PIAP00000000 Cj 27 33 192 1,596,189
CFSAN065319 PIAO00000000 Cj 29 67 68 1,727,160
CFSAN065320 PIAN00000000 Cj 30 29 158 1,594,811
CFSAN065321 PIAM00000000 Cj 31 36 258 1,636,720
CFSAN065322 PIAL00000000 Cj 32 35 300 1,636,458
CFSAN065323 PIAK00000000 Cj 33 31 250 1,637,414
CFSAN065324 PIAJ00000000 Cj 34 42 231 1,683,573
CFSAN065325 PIAI00000000 CCAMP 81 47 88 1,635,800
CFSAN065326 PIAH00000000 CCAMP 159 38 156 1,812,324
CFSAN065327 PIAG00000000 CCAMP 162 35 271 1,599,331
CFSAN065328 PIAF00000000 CCAMP 163 38 292 1,599,208
CFSAN065329 PIAE00000000 CCAMP 470 41 260 1,760,234
CFSAN065330 PIAD00000000 CCAMP 471 46 148 1,759,697
CFSAN065331 PIAC00000000 CCAMP 472 40 207 1,760,447
CFSAN065332 PIAB00000000 CCAMP 473 42 184 1,713,063
CFSAN065333 PIAA00000000 CCAMP 476 29 197 1,704,094
CFSAN065334 PHZZ00000000 CCAMP 478 31 160 1,703,651
CFSAN065335 PHZY00000000 CCAMP 479 37 184 1,706,050
CFSAN065336 PHZX00000000 CCAMP 480 26 96 1,651,015
CFSAN065337 PHZW00000000 CCAMP 481 25 159 1,649,512
CFSAN065338 PHZV00000000 CCAMP 487 63 117 1,685,038
CFSAN065339 PHZU00000000 CCAMP 488 109 66 1,683,207
CFSAN065340 PHZT00000000 CCAMP 489 34 95 1,685,408
CFSAN065341 PHZS00000000 CCAMP 493 38 101 1,611,209
CFSAN065342 PHZR00000000 CCAMP 497 116 77 1,716,424
CFSAN065343 PHZQ00000000 CCAMP 501 49 163 1,689,341
CFSAN065344 PHZP00000000 CCAMP 506 53 90 1,687,457
CFSAN065345 PHZO00000000 CCAMP 512 35 163 1,611,698
CFSAN065346 PHZN00000000 CCAMP 588 65 317 1,634,101
CFSAN065347 PHZM00000000 CCAMP 594 80 330 1,748,723
CFSAN065348 PHZL00000000 CCAMP 601 58 401 1,768,624
CFSAN065349 PHZK00000000 CCAMP 612 61 337 1,694,670
CFSAN065350 PHZJ00000000 CCAMP 621 74 341 1,785,086
CFSAN065351 PHZI00000000 CCAMP 672 81 407 1,735,916
CFSAN065352 PHZH00000000 CCAMP 674 75 419 1,735,575
CFSAN065353 PHZG00000000 CCAMP 675 79 318 1,734,937
CFSAN065354 PHZF00000000 CCAMP 678 54 343 1,767,906
CFSAN065355 PHZE00000000 CCAMP 685 67 418 1,634,518
CFSAN065356 PHZD00000000 CCAMP 687 185 79 1,727,948
CFSAN065357 PHZC00000000 CCAMP 689 101 343 1,738,975
CFSAN065358 PHZB00000000 CCAMP 696 83 410 1,728,963
CFSAN065360 PHZA00000000 CCAMP 699 244 240 1,778,240
CFSAN065361 PHYZ00000000 CCAMP 700 89 233 1,783,490
CFSAN065362 PHYY00000000 CCAMP 730 43 405 1,683,506
CFSAN065363 PHYX00000000 CCAMP 764 69 473 1,676,314
CFSAN065364 PHYW00000000 CCAMP 770 73 419 1,784,355
CFSAN065365 PHYV00000000 CCAMP 789 93 271 1,859,503
CFSAN065366 PHYU00000000 CCAMP 828 66 521 1,688,461
CFSAN065367 PHYT00000000 CCAMP 830 53 422 1,610,333
CFSAN065368 PHYS00000000 CCAMP 845 81 412 1,732,437
CFSAN065369 PHYR00000000 CCAMP 980 60 438 1,610,707
CFSAN065370 PHYQ00000000 CCAMP 991 53 321 1,621,260
CFSAN065371 PHYP00000000 CCAMP 1013 71 239 1,676,660
CFSAN065372 PHYO00000000 CCAMP 1014 70 271 1,736,018
CFSAN065373 PHYN00000000 CCAMP 1015 48 163 1,712,819
CFSAN065374 PHYM00000000 CCAMP 1016 46 221 1,713,751
CFSAN065375 PHYL00000000 CCAMP 1018 338 248 1,841,107
CFSAN065376 PHYK00000000 CCAMP 1019 73 260 1,618,523
CFSAN065377 PHYJ00000000 CCAMP 1020 60 342 1,718,399
CFSAN065378 PHYI00000000 CCAMP 1021 53 412 1,715,372
CFSAN065379 PHYH00000000 CCAMP 1023 74 429 1,620,071
CFSAN065380 PHYG00000000 CCAMP 1024 67 428 1,619,031
CFSAN065381 PHYF00000000 CCAMP 1025 61 178 1,716,643
CFSAN065382 PHYE00000000 CCAMP 1032 69 194 1,619,042
CFSAN065383 PHYD00000000 CCAMP 1039 86 288 1,763,753
CFSAN065384 PHYC00000000 CCAMP 1047 59 133 1,614,893
CFSAN065385 PHYB00000000 CCAMP 1048 78 344 1,760,602
CFSAN065386 PHYA00000000 CCAMP 1050 72 441 1,737,009
CFSAN065387 PHXZ00000000 CCAMP 1051 74 486 1,739,722
CFSAN065388 PHXY00000000 CCAMP 1052 78 396 1,740,214
CFSAN065389 PHXX00000000 CCAMP 1053 86 247 1,682,879
CFSAN065390 PHXW00000000 CCAMP 1054 87 327 1,681,930
CFSAN065391 PHXV00000000 CCAMP 1055 87 431 1,685,406
CFSAN065392 PHXU00000000 CCAMP 1056 83 393 1,742,202
CFSAN065393 PHXT00000000 CCAMP 1057 94 350 1,745,619
CFSAN065394 PHXS00000000 CCAMP 1058 75 468 1,680,673
CFSAN065395 PHXR00000000 CCAMP 1059 81 435 1,680,464
CFSAN065396 PHXQ00000000 CCAMP 1060 59 456 1,735,059
CFSAN065397 PHXP00000000 CCAMP 1061 81 314 1,731,243
CFSAN065399 PHXO00000000 CCAMP 1080 308 489 1,852,898
CFSAN065400 PHXN00000000 CCAMP 1140 66 239 1,608,933
CFSAN065401 PHXM00000000 CCAMP 1266 64 353 1,698,726
CFSAN065402 PHXL00000000 CCAMP 1466 80 419 1,641,107
CFSAN065403 PHXK00000000 CCAMP 1478 109 93 1,708,613
CFSAN065404 PHXJ00000000 CCAMP 1491 105 128 1,729,770
CFSAN065405 PHXI00000000 CCAMP 1493 126 350 1,632,513
CFSAN065406 PHXH00000000 CCAMP 1497 115 178 1,663,987
CFSAN065407 PHXG00000000 CCAMP 1518 124 159 1,805,069
CFSAN065408 PHXF00000000 CCAMP 1519 132 190 1,767,168
CFSAN065409 PHXE00000000 CCAMP 1520 217 168 1,836,048
CFSAN065410 PHXD00000000 CCAMP 1521 185 116 1,819,069
CFSAN065411 PITS00000000 CCAMP 1523 185 153 1,816,718
CFSAN065412 PHXC00000000 CCAMP 1538 241 163 1,855,211
CFSAN065413 PHXB00000000 CCAMP 1555 236 215 1,806,342
CFSAN065414 PHXA00000000 CCAMP 1574 192 163 1,806,801
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ACKNOWLEDGMENTS

This study was supported by an FDA/Center for Food Safety and Applied Nutrition (CFSAN) research grant under the supervision of Marc William Allard and a grant from the Sao Paulo Research Foundation (FAPESP) (no. 2014/13029-0) under the supervision of Juliana Pfrimer Falcão. During the course of this work, Miliane Rodrigues Frazão was supported by a scholarship from Coordination for the Improvement of the Higher Education Personnel (CAPES/PDSE) (no. 88881.133716/2016-01).

Footnotes

Citation Frazão MR, Cao G, Medeiros MIC, Duque SDS, Leon MS, Allard MW, Falcão JP. 2018. Draft genome sequences of 116 Campylobacter jejuni strains isolated from humans, animals, food, and the environment in Brazil. Genome Announc 6:e00250-18. https://doi.org/10.1128/genomeA.00250-18.

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