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Nucleotide Amino Acid Size (Nt) #Orfs Marnavirus Heterosigma Akashiwo Heterosigma Akashiwo RNA Heterosigma Lang Et Al

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Supplementary Table 1: Summary of information for all viruses falling within the seven Marnaviridae genera in our analyses. Accession Genome Genus Species Virus name Strain Abbreviation Source Country Reference Nucleotide Amino acid Size (nt) #ORFs Marnavirus Heterosigma akashiwo Heterosigma akashiwo RNA Heterosigma Lang et al. , 2004; HaRNAV AY337486 AAP97137 8587 One Canada RNA virus 1 virus akashiwo Tai et al. , 2003 Marine single- ASG92540 Moniruzzaman et Classification pending Q sR OV 020 KY286100 9290 Two celled USA ASG92541 al ., 2017 eukaryotes Marine single- Moniruzzaman et Classification pending Q sR OV 041 KY286101 ASG92542 9328 One celled USA al ., 2017 eukaryotes APG78557 Classification pending Wenzhou picorna-like virus 13 WZSBei69459 KX884360 9458 One Bivalve China Shi et al ., 2016 APG78557 Classification pending Changjiang picorna-like virus 2 CJLX30436 KX884547 APG79001 7171 One Crayfish China Shi et al ., 2016 Beihai picorna-like virus 57 BHHQ57630 KX883356 APG76773 8518 One Tunicate China Shi et al ., 2016 Classification pending Beihai picorna-like virus 57 BHJP51916 KX883380 APG76812 8518 One Tunicate China Shi et al ., 2016 Marine single- ASG92530 Moniruzzaman et Classification pending N OV 137 KY130494 7746 Two celled USA ASG92531 al ., 2017 eukaryotes Hubei picorna-like virus 7 WHSF7327 KX884284 APG78434 9614 One Pill worm China Shi et al ., 2016 Classification pending Hubei picorna-like virus 7 WHCC111241 KX884268 APG78407 7945 One Insect China Shi et al ., 2016 Sanxia atyid shrimp virus 2 WHCCII13331 KX884278 APG78424 10445 One Insect China Shi et al ., 2016 Classification pending Freshwater atyid Sanxia atyid shrimp virus 2 SXXX37884 KX883708 APG77465 10400 One China Shi et al ., 2016 shrimp Labyrnavirus Aurantiochytrium single Aurantiochytrium single stranded BAE47143 Aurantiochytriu AuRNAV AB193726 9035 Three4 Japan Takao et al. , 2006 stranded RNA virus 1 RNA virus YP_398835 m sp. López-Bueno et Classification pending Antarctic picorna-like virus 3 APLV3 KM259871 AKG93964 8644 One Lake Antarctica al ., 2015 APG77377 Freshwater Shahe picorna-like virus 6 SHWC0209c11084 KX883653 8831 Two China Shi et al ., 2016 APG77378 heteroptera Classification pending APG77381 Freshwater Shahe picorna-like virus 6 SHWC13532 KX883655 8831 Two China Shi et al ., 2016 APG77382 arthropod APG78591 Classification pending Wenzhou picorna-like virus 19 WZSLuoII97616 KX884381 10153 Two Gastropod China Shi et al ., 2016 APG78592 Classification pending Beihai picorna-like virus 56 BWBFG40791 KX884529 APG78971 10546 One Paphia shell China Shi et al ., 2016 Beihai picorna-like virus 50 BHBei76574 KX883311 APG76693 7543 One Bivalve China Shi et al ., 2016 Classification pending Beihai picorna-like virus 50 BHZC37234 KX884484 APG78898 7599 One Razor shell China Shi et al ., 2016 Channeled Classification pending Wenzhou picorna-like virus 22 WZFSL83961 KX884331 APG78507 8890 One China Shi et al ., 2016 applesnail Channeled Classification pending Wenzhou picorna-like virus 23 WZFSL85852 KX884324 APG78497 9223 One China Shi et al ., 2016 applesnail Beihai picorna-like virus 59 BHBei77099 KX883321 APG76708 9096 One Bivalve China Shi et al ., 2016 Classification pending Beihai picorna-like virus 59 BHZC37451 KX884500 APG78921 9096 One Razor shell China Shi et al ., 2016 APG76888 Classification pending Beihai picorna-like virus 63 BHTSS17878 KX883419 8334 Two Woodlouse China Shi et al ., 2016 APG76889 APG76771 Beihai picorna-like virus 64 BHHQ137467 KX883355 8646 Two Tunicate China Shi et al ., 2016 APG76889 Classification pending APG76815 Beihai picorna-like virus 64 BHJP54755 KX883382 8647 Two Echinoderm China Shi et al ., 2016 APG76816 Labyrnavirus Classification pending Beihai picorna-like virus 62 BHBei74566 KX883309 APG76690 8507 One Bivalve China Shi et al ., 2016 Classification pending Beihai picorna-like virus 61 BHBei76813 KX883313 APG76696 9113 One Bivalve China Shi et al ., 2016 Classification pending Beihai picorna-like virus 60 BHBei55726 KX883305 APG76685 8818 One Bivalve China Shi et al ., 2016 APG78560 Classification pending Wenzhou picorna-like virus 24 WZSBei69493 KX884362 8778 Two Bivalve China Shi et al ., 2016 APG78560 Locarnavirus ABQ50601 Jericarnavirus B 2 Marine RNA virus JP-B JP-B EF198242 8926 Two Coastal marine Canada Culley et al. , 2007 ABQ50602 AGZ83339 Coastal Greninger and Sanfarnavirus 2 Marine RNA virus SF-2 SF-2 KF412901 9321 Two USA AGZ83340 wastewater DeRisi, 2015 AFM44930 Coastal Greninger and Sanfarnavirus 1 Marine RNA virus SF-1 SF-1 JN661160 8970 Two USA AFM44929 wastewater DeRisi, 2015 Coastal Greninger and Sanfarnavirus 3 Marine RNA virus SF-3 SF-3 KF478836 AHA44480 8648 One USA wastewater DeRisi, 2015 APG78020 Classification pending Beihai picorna-like virus 42 SCJXSX39263 KX883963 9166 Two Sesarmid crab China Shi et al ., 2016 APG78021 APG76706 Classification pending Beihai picorna-like virus 58 BHBei77093 KX883320 8411 Two Bivalve China Shi et al ., 2016 APG76707 Freshwater atyid Classification pending Sanxia picorna-like virus 8 SXXX35540 KX883720 APG77485 7418 One China Shi et al ., 2016 shrimp Classification pending Changjiang picorna-like virus 1 CJLX3014 KX884546 APG79000 8729 One Crayfish China Shi et al ., 2016 APG78521 Channeled Classification pending Wenzhou picorna-like virus 12 WZFSL74240 KX884340 9025 Two China Shi et al ., 2016 APG78522 applesnail Marine single- ASG92524 Moniruzzaman et Classification pending N OV 080 KY130491 8584 Two celled USA ASG92525 al ., 2017 eukaryotes APG78593 Classification pending Wenzhou picorna-like virus 14 WZSLuoII97619 KX884382 8951 Two Gastropod China Shi et al ., 2016 APG78594 APG76734 Beihai picorna-like virus 43 BHBJDX18749 KX883335 8935 Two Penaeid shrimp China Shi et al ., 2016 APG76735 APG76791 Beihai picorna-like virus 43 BHJJX25682 KX883367 8328 Two Hermit crab China Shi et al ., 2016 APG76792 APG76908 Classification pending Beihai picorna-like virus 43 BHWZXX15634 KX883429 8935 Two Penaeid shrimp China Shi et al ., 2016 APG76909 APG76831 Beihai picorna-like virus 43 BHNXC41212 KX883390 8943 Two Peanut worm China Shi et al ., 2016 APG76832 APG78018 Beihai picorna-like virus 43 SCJXSX39249 KX883962 8522 Two Sesarmid crab China Shi et al ., 2016 APG78019 APG78992 Classification pending Changjiang picorna-like virus 3 CJLX28786 KX884542 9316 Two Crayfish China Shi et al ., 2016 APG78993 APG78502 Channeled Classification pending Wenzhou picorna-like virus 15 WZFSL85504 KX884328 8610 Two China Shi et al ., 2016 APG78503 applesnail APG76697 Classification pending Beihai razor shell virus 2 BHBei76898 KX883314 8702 Two Bivalve China Shi et al ., 2016 APG76698 APG78903 Classification pending Beihai razor shell virus 2 BHZC37307 KX884488 8430 Two Razor shell China Shi et al ., 2016 APG78904 APG78900 Beihai razor shell virus 1 BHZC37272 KX884486 8628 Two Razor shell China Shi et al ., 2016 APG78901 APG76694 Classification pending Beihai razor shell virus 1 BHBei76693 KX883312 8349 Two Bivalve China Shi et al ., 2016 APG76695 APG76730 Beihai razor shell virus 1 BHBJDX18719 KX883333 8627 Two Penaeid shrimp China Shi et al ., 2016 APG76731 Locarnavirus APG78866 Classification pending Beihai picorna-like virus 44 BHXG26143 KX884466 8711 Two Mantis shrimp China Shi et al ., 2016 APG78867 Freshwater Shahe picorna-like virus 4 SHWC0209c12741 KX883645 APG77365 8853 One China Shi et al ., 2016 isoptera Classification pending Freshwater Shahe picorna-like virus 4 SHWC13603 KX883659 APG77387 8860 One China Shi et al ., 2016 arthropod APG78911 Classification pending Beihai picorna-like virus 46 BHZC37388 KX884493 9153 Two Razor shell China Shi et al ., 2016 APG78912 Classification pending Beihai picorna-like virus 45 BHZC37433 KX884496 APG78916 6098 One Razor shell China Shi et al ., 2016 APG77498 Classification pending Hubei leech virus 3 SZmix63518 KX883727 8848 Two Leech China Shi et al ., 2016 APG77499 APG78398 Classification pending Hubei picorna-like virus 2 WHBL73152 KX884264 9147 Two Myriapod China Shi et al ., 2016 APG78399 APG78402 Classification pending Hubei picorna-like virus 3 WHCC101453 KX884266 8824 Two Insect China Shi et al ., 2016 APG78403 Channeled Classification pending Wenzhou picorna-like virus 16 WZFSL67369 KX884342 APG78525 6372 One China Shi et al ., 2016 applesnail APG78024 Classification pending Beihai picorna-like virus 47 SCJXSX39359 KX883965 8920 Two Sesarmid crab China Shi et al ., 2016 APG78025 APG77478 Freshwater atyid Classification pending Sanxia picorna-like virus 9 SXXX36560 KX883717 8114 Two China Shi et al ., 2016 APG77479 shrimp APG78918 Classification pending Beihai picorna-like virus 48 BHZC37443 KX884498 9382 Two Razor shell China Shi et al ., 2016 APG78918 APG77383 Freshwater Classification pending Shahe picorna-like virus 5 SHWC13542 KX883656 8658 Two China Shi et al ., 2016 APG77384 arthropod Wenzhou channeled applesnail APG78504 Channeled Classification pending WZFSL85493 KX884329 8943 Two China Shi et al ., 2016 virus 1 APG78505 applesnail APG78400 Freshwater Classification pending Hubei picorna-like virus 4 WHBL90007 KX884265 8604 Two China Shi et al ., 2016 APG78401 shellfish APG78392 Freshwater Classification pending Hubei picorna-like virus 5 WHBL70549 KX884261 8763 Two China Shi et al ., 2016 APG78393 shellfish APG78994 Classification pending Changjiang picorna-like virus 4 CJLX29654 KX884543 8923 Two Crayfish mix China Shi et al ., 2016 APG78995 APG78891 Classification pending Beihai picorna-like virus 49 BHZC36855 KX884480 8407 Two Razor shell China Shi et al ., 2016 APG78892 APG77494 Hubei
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    Virus Research 261 (2019) 9–20 Contents lists available at ScienceDirect Virus Research journal homepage: www.elsevier.com/locate/virusres The intestinal virome of malabsorption syndrome-affected and unaffected broilers through shotgun metagenomics T ⁎ Diane A. Limaa, , Samuel P. Cibulskib, Caroline Tochettoa, Ana Paula M. Varelaa, Fabrine Finklera, Thais F. Teixeiraa, Márcia R. Loikoa, Cristine Cervac, Dennis M. Junqueirad, Fabiana Q. Mayerc, Paulo M. Roehea a Laboratório de Virologia, Departamento de Microbiologia, Imunologia e Parasitologia, Instituto de Ciências Básicas da Saúde (ICBS), Universidade Federal do Rio Grande do Sul (UFRGS), Porto Alegre, RS, Brazil b Laboratório de Virologia, Faculdade de Veterinária, Universidade Federal do Rio Grande do Sul, Porto Alegre, RS, Brazil c Laboratório de Biologia Molecular, Instituto de Pesquisas Veterinárias Desidério Finamor (IPVDF), Eldorado do Sul, RS, Brazil d Centro Universitário Ritter dos Reis - UniRitter, Health Science Department, Porto Alegre, RS, Brazil ARTICLE INFO ABSTRACT Keywords: Malabsorption syndrome (MAS) is an economically important disease of young, commercially reared broilers, Enteric disorders characterized by growth retardation, defective feather development and diarrheic faeces. Several viruses have Virome been tentatively associated to such syndrome. Here, in order to examine potential associations between enteric Broiler chickens viruses and MAS, the faecal viromes of 70 stool samples collected from diseased (n = 35) and healthy (n = 35) High-throughput sequencing chickens from seven flocks were characterized and compared. Following high-throughput sequencing, a total of 8,347,319 paired end reads, with an average of 231 nt, were generated. Through analysis of de novo assembled contigs, 144 contigs > 1000 nt were identified with hits to eukaryotic viral sequences, as determined by GenBank database.
  • Genetic Characterization of a Novel

    Genetic Characterization of a Novel

    www.nature.com/scientificreports OPEN Genetic characterization of a novel picornavirus in Algerian bats: co- evolution analysis of bat-related picornaviruses Safa Zeghbib1,2, Róbert Herczeg3, Gábor Kemenesi1,2, Brigitta Zana1,2, Kornélia Kurucz1,2, Péter Urbán3, Mónika Madai1,2, Fanni Földes1,2, Henrietta Papp1,2, Balázs Somogyi1,2 & Ferenc Jakab1,2* Bats are reservoirs of numerous zoonotic viruses. The Picornaviridae family comprises important pathogens which may infect both humans and animals. In this study, a bat-related picornavirus was detected from Algerian Minioptreus schreibersii bats for the frst time in the country. Molecular analyses revealed the new virus originates to the Mischivirus genus. In the operational use of the acquired sequence and all available data regarding bat picornaviruses, we performed a co-evolutionary analysis of mischiviruses and their hosts, to authentically reveal evolutionary patterns within this genus. Based on this analysis, we enlarged the dataset, and examined the co-evolutionary history of all bat-related picornaviruses including their hosts, to efectively compile all possible species jumping events during their evolution. Furthermore, we explored the phylogeny association with geographical location, host- genus and host-species in both data sets. In the last several decades, bat-related virological studies revealed an increase in the major virus groups highlight- ing outstanding diversity and prevalence among bats (e.g., Astroviridae, Coronaviridae and Picornaviridae)1–3. Although several novel viruses were discovered in these animals worldwide, fewer studies examined the evolu- tionary patterns regarding these pathogens. Among bat-harbored viruses, members of the Picornaviridae family remains neglected with limited available sequence data4. Te virus family consists of nearly 80 species grouped into 35 genera, and includes several well-known human and animal pathogens, causing various symptoms ranging from mild febrile illness to severe diseases of heart, liver or even the central nervous system5.