Title | Genotypic diversity, circulation patterns and co-detections among rhinoviruses in Queensland, 2001. | ||
Author | Arden, Katherine E; Greer, Ristan M; Wang, Claire Y T; Mackay, Ian M | ||
Journal | Access Microbiol | Publication Year/Month | 2020 |
PMID | 33062934 | PMCID | PMC7525053 |
Affiliation + expend | 1.Child Health Research Centre, The University of Queensland, Brisbane, Queensland, Australia. |
PURPOSE: Rhinoviruses (RVs) occur more frequently than other viruses and more often in people displaying symptoms than in those without. We sought to estimate the spectrum of RV diversity, RV species seasonality and to analyse RV involvement in respiratory virus co-detections. METHODOLOGY: A convenience collection of 1179 airway sample extracts from patients with suspected respiratory infections, collected during 2001, was subjected to comprehensive molecular testing. RESULTS: RVs were the most common virus detected. We were able to genotype ~90 % of RV detections, identifying 70 distinct RVs, spanning all three species. RV-Bs were under-represented. We found RV species co-circulated at times, although one species usually dominated. Each species displayed a bimodal distribution. CONCLUSION: Notably, RVs and influenza A viruses (IFAV) seldom co-occurred, supporting their roles as primary pathogens of the airway among acutely ill infants. Whether RV circulation has a moderating or controlling effect on the IFAV season or is controlled by it cannot be determined from these data. Despite the frequent perception that RVs commonly co-occur with another virus, our findings indicated this was not always the case. Nearly 80 % of RV detections occurred alone. Understanding more about population-level interference between viruses may allow us to harness aspects of it to generate a non-specific antiviral intervention that mimics a putative protective effect. For routine respiratory virus screening to best serve the patient, RV testing should be a principal component of any acute respiratory illness testing algorithm throughout the year.
StrainID | RV Species | Serotype | Length(nt) | Country | Year | Strain Name |
---|---|---|---|---|---|---|
CNM04225 | C | 37 | 457 | Australia | 2001 | HRV-C37 QRS_279_2001 |
CNM04230 | C | 28 | 494 | Australia | 2001 | HRV-C28 QRS_232_2001 |
CNM04235 | C | 18 | 491 | Australia | 2001 | HRV-C18 QRS_174_2001 |
CNM04240 | C | 17 | 410 | Australia | 2001 | HRV-C17 QRS_125_2001 |
CNM04245 | C | 5 | 489 | Australia | 2001 | HRV-C5 QRS_101_2001 |
CNM04250 | C | None | 451 | Australia | 2001 | HRV-Cpat10 QRS_080_2001 |
CNM04255 | C | 6 | 369 | Australia | 2001 | HRV-C6 QRS_050_2001 |
CNM04260 | C | 15 | 440 | Australia | 2001 | HRV-C15 QRS_011_2001 |
CNM04300 | C | 51 | 280 | Australia | 2001 | HRV-C51 QRS_248_2001 |
CNM04305 | C | 25 | 313 | Australia | 2001 | HRV-C25 QRS_217_2001 |
CNM04310 | C | 38 | 317 | Australia | 2001 | HRV-C38 QRS_208_2001 |
CNM04315 | C | 25 | 312 | Australia | 2001 | HRV-C25 QRS_190_2001 |
CNM04320 | C | 36 | 328 | Australia | 2001 | HRV-C36 QRS_149_2001 |
CNM04325 | C | 43 | 320 | Australia | 2001 | HRV-C43 QRS_142_2001 |
CNM04330 | C | 28 | 274 | Australia | 2001 | HRV-C28 QRS_132_2001 |
CNM04335 | C | 2 | 319 | Australia | 2001 | HRV-C2 QRS_121_2001 |
CNM04340 | C | 6 | 321 | Australia | 2001 | HRV-C6 QRS_109_2001 |
CNM04345 | C | 15 | 313 | Australia | 2001 | HRV-C15 QRS_065_2001 |
CNM04350 | C | 5 | 328 | Australia | 2001 | HRV-C5 QRS_037_2001 |
CNM04355 | C | 39 | 319 | Australia | 2001 | HRV-C39 QRS_013_2001 |
CNP04222 | C | 15 | 455 | Australia | 2001 | HRV-C15 QRS_294_2001 |
CNP04227 | C | 2 | 464 | Australia | 2001 | HRV-C2 QRS_272_2001 |
CNP04232 | C | 43 | 491 | Australia | 2001 | HRV-C43 QRS_222_2001 |
CNP04237 | C | 43 | 489 | Australia | 2001 | HRV-C43 QRS_160_2001 |
CNP04242 | C | 2 | 446 | Australia | 2001 | HRV-C2 QRS_115_2001 |
CNP04247 | C | 39 | 488 | Australia | 2001 | HRV-C39 QRS_091_2001 |
CNP04252 | C | 15 | 432 | Australia | 2001 | HRV-C15 QRS_070_2001 |
CNP04257 | C | 15 | 444 | Australia | 2001 | HRV-C15 QRS_017_2001 |
CNP04297 | C | 16 | 318 | Australia | 2001 | HRV-C16 QRS_257_2001 |
CNP04302 | C | 28 | 325 | Australia | 2001 | HRV-C28 QRS_234_2001 |
CNP04307 | C | 43 | 321 | Australia | 2001 | HRV-C43 QRS_214_2001 |
CNP04312 | C | 28 | 326 | Australia | 2001 | HRV-C28 QRS_204_2001 |
CNP04317 | C | 25 | 313 | Australia | 2001 | HRV-C25 QRS_177_2001 |
CNP04322 | C | 3 | 316 | Australia | 2001 | HRV-C3 QRS_146_2001 |
CNP04327 | C | 15 | 313 | Australia | 2001 | HRV-C15 QRS_139_2001 |
CNP04332 | C | 2 | 316 | Australia | 2001 | HRV-C2 QRS_127_2001 |
CNP04337 | C | 36 | 329 | Australia | 2001 | HRV-C36 QRS_117_2001 |
CNP04342 | C | 36 | 330 | Australia | 2001 | HRV-C36 QRS_095_2001 |
CNP04347 | C | 5 | 328 | Australia | 2001 | HRV-C5 QRS_041_2001 |
CNP04352 | C | 2 | 322 | Australia | 2001 | HRV-C2 QRS_031_2001 |
CNS04223 | C | None | 455 | Australia | 2001 | HRV-Cpat10 QRS_293_2001 |
CNS04228 | C | None | 457 | Australia | 2001 | HRV-Cpat10 QRS_266_2001 |
CNS04233 | C | 49 | 488 | Australia | 2001 | HRV-C49 QRS_203_2001 |
CNS04238 | C | 20 | 449 | Australia | 2001 | HRV-C20 QRS_159_2001 |
CNS04243 | C | 28 | 446 | Australia | 2001 | HRV-C28 QRS_114_2001 |
CNS04248 | C | 6 | 413 | Australia | 2001 | HRV-C6 QRS_084_2001 |
CNS04253 | C | 5 | 489 | Australia | 2001 | HRV-C5 QRS_067_2001 |
CNS04258 | C | 15 | 442 | Australia | 2001 | HRV-C15 QRS_015_2001 |
CNS04298 | C | None | 323 | Australia | 2001 | HRV-Cpat19 QRS_251_2001 |
CNS04303 | C | 17 | 318 | Australia | 2001 | HRV-C17 QRS_224_2001 |
CNS04308 | C | 28 | 320 | Australia | 2001 | HRV-C28 QRS_213_2001 |
CNS04313 | C | 43 | 321 | Australia | 2001 | HRV-C43 QRS_201_2001 |
CNS04318 | C | None | 324 | Australia | 2001 | HRV-Cpat19 QRS_164_2001 |
CNS04323 | C | 26 | 328 | Australia | 2001 | HRV-C26 QRS_144_2001 |
CNS04328 | C | 51 | 325 | Australia | 2001 | HRV-C51 QRS_135_2001 |
CNS04333 | C | 2 | 317 | Australia | 2001 | HRV-C2 QRS_126_2001 |
CNS04338 | C | 37 | 323 | Australia | 2001 | HRV-C37 QRS_116_2001 |
CNS04343 | C | 39 | 325 | Australia | 2001 | HRV-C39 QRS_081_2001 |
CNS04348 | C | 5 | 328 | Australia | 2001 | HRV-C5 QRS_039_2001 |
CNS04353 | C | 45 | 315 | Australia | 2001 | HRV-C45 QRS_023_2001 |
CNZ04221 | C | 22 | 460 | Australia | 2002 | HRV-C22 QRS_296_2001 |
CNZ04226 | C | 17 | 460 | Australia | 2001 | HRV-C17 QRS_278_2001 |
CNZ04231 | C | 49 | 488 | Australia | 2001 | HRV-C49 QRS_225_2001 |
CNZ04236 | C | 12 | 492 | Australia | 2001 | HRV-C12 QRS_168_2001 |
CNZ04241 | C | 2 | 489 | Australia | 2001 | HRV-C2 QRS_119_2001 |
CNZ04246 | C | 36 | 489 | Australia | 2001 | HRV-C36 QRS_092_2001 |
CNZ04251 | C | 5 | 491 | Australia | 2001 | HRV-C5 QRS_075_2001 |
CNZ04256 | C | 5 | 489 | Australia | 2001 | HRV-C5 QRS_022_2001 |
CNZ04261 | C | 5 | 490 | Australia | 2001 | HRV-C5 QRS_008_2001 |
CNZ04301 | C | None | 324 | Australia | 2001 | HRV-Cpat19 QRS_239_2001 |
CNZ04306 | C | 18 | 326 | Australia | 2001 | HRV-C18 QRS_216_2001 |
CNZ04311 | C | 49 | 321 | Australia | 2001 | HRV-C49 QRS_207_2001 |
CNZ04316 | C | 12 | 317 | Australia | 2001 | HRV-C12 QRS_186_2001 |
CNZ04321 | C | 10 | 315 | Australia | 2001 | HRV-C10 QRS_147_2001 |
CNZ04326 | C | 28 | 324 | Australia | 2001 | HRV-C28 QRS_140_2001 |
CNZ04331 | C | 38 | 324 | Australia | 2001 | HRV-C38 QRS_128_2001 |
CNZ04336 | C | 38 | 324 | Australia | 2001 | HRV-C38 QRS_118_2001 |
CNZ04341 | C | 36 | 325 | Australia | 2001 | HRV-C36 QRS_097_2001 |
CNZ04346 | C | 5 | 329 | Australia | 2001 | HRV-C5 QRS_044_2001 |
CNZ04351 | C | 5 | 328 | Australia | 2001 | HRV-C5 QRS_033_2001 |
CNZ04356 | C | 3 | 321 | Australia | 2001 | HRV-C3 QRS_001_2001 |