biostudies-literatureUnknown57(1)Sasa NMEXT | Japan Society for the Promotion of ScienceJapan Agency for Medical Research and DevelopmentAberrant immune responses to viral pathogens contribute to pathogenesis, but our understanding of pathological immune responses caused by viruses within the human virome, especially at a population scale, remains limited. We analyzed whole-genome sequencing datasets of 6,321 Japanese individuals, including patients with autoimmune diseases (psoriasis vulgaris, rheumatoid arthritis (RA), systemic lupus erythematosus (SLE), pulmonary alveolar proteinosis (PAP) or multiple sclerosis) and coronavirus disease 2019 (COVID-19), or healthy controls. We systematically quantified two constituents of the blood DNA virome, endogenous HHV-6 (eHHV-6) and anellovirus. Participants with eHHV-6B had higher risks of SLE and PAP; the former was validated in All of Us. eHHV-6B-positivity and high SLE disease Nature genetics65-79https://www.ebi.ac.uk/biostudies/studies/S-EPMC11735405biostudies-literatureBlood DNA virome associates with autoimmune diseases and COVID-19.PMC11735405Saito RMomose MOsawa TSaito YMiyazaki YNakagawa ITanino YIhara SSonehara KTakaki MMatsuda FWatanabe CHosoda CMashimo SNakagawa AOhshima SOgata TTakayanagi NWatanabe HImafuku SIsogai SWatanabe MWatanabe KUchida TTsuburai TWatanabe RFukuyama SUchida SHigasa KKita TKashiwada TIshitsuka YYatomi MKuse NKanda HKagyo JNishitsuji MMorisaki HFuruta JJapan COVID-19 Task ForceSaito FUchida ASaito HHanada SKan-O KKishi HMakino YAsano KImaizumi KYamasaki MSato YMakino SNaito TNamkoong HKimizuka YChubachi SHashimoto SMiyano SUchimura YIshikura HHashimoto NKaneko YOgata HSakaue SOhta SKuramochi MNanki KUwamino YImamura TYagita-Sakamaki MOhta KSato TSato SSato RYamashita TSato MHirose MKuge TMatsuse HJinnin MShirai TKusaka YWakahara KShirai YTone MChiba SYonekawa AOta SSakurai TKojima SNakamura MKitagawa YNakamura KKajihara IAnzai TTsuchida TEdahiro RIshiguro TIshioka KKojima MOchi JNakamura ATateno HAbe RAsano YParrish NFAzuma MAbe SNakamura YNakata KOkamori SNakada TAKasamatsu YNagai HHyugaji TKohashi STateishi TMori NSagara HHorinouchi HOgura TYoneda MMatsunaga TIzumo THarada YHarada SOgura SHarada NHarada MMuranaka HKomuta KBeppu SHashiguchi MHagimoto SMiyazaki MMotegi MTakaoka HOdani TOgawa KShimada SShimada THiramatsu YOgawa AMatsui THirano TYokomura KOshima TShimada HSugimoto HKawana AKumanogoh AFujimoto NKishikawa TFujimoto MSassa CTKoike RKawana MHagihara MNishigori CShibusawa TKimura AOgawa SAmishima MNishi KHirouchi TFunatsu YHaruta YKimura YSasa NKimura TNannya YIchiwata TWakabayashi AMorita TKimura NSueyoshi AMorita AShibata SMasuda MKai HShibata YKuwahara NYoshihara TTada YKinoshita MIshii MOkamoto MKawashima HYoshida SNagasaki TYoshida TFujisawa TYoshida EIshii HOhkouchi SFujita KYoshida KNamba SNagasaki YOkamoto TIshii TEriguchi YKikuchi RFujii KUtsugi MOshio TMorimoto KKagaya TEnomoto TKobayashi KTakano KFukui TNishikawa RNiitsu THoshino KTakano TFukui YTogashi YIgarashi ANishikawa MIshida MHasegawa TEgi MHasegawa YTamari MManabe TTakada TNoda YTakada MTada AEndo MSonobe KShimizu TShimizu EEndo AOguro-Igashira ETakahashi TIwagoe HNakayama STakahashi SHasegawa NTakahashi MTakahashi KTakahashi HMatsumoto SMatsumoto THirota TKamimaki IHanda TMurohashi KAwano NFujiwara ANagata KMatsui YMiyawaki MKobayashi YMatsumoto KShimo MNakamori YKawamura KMutoh YOzaki SOno YKawamura TYamagata KSano SMaruyama SSandhu YSano TKida HMinemura HAsakura TSageshima HKamata HMatsue HInoue TInoue SShinozuka JKamata MShinozuka KYamada TTazawa RInoue HYamada MAmiya SOyamada YMochizuki HIchimura NYamada YSano HInoue YIshihara SSasaki JSasaki KMatsubara TSado RSado TInohara HKonishi SBito TNagao GOdate MSatake YShoko TNakano YIkumi KTomii KKozu YFuke SAi MSaiki RChihara YNishio KMiyazawa NYokote KNakano CIzumi NNukaga SNishiyama KYamano YHiki MKomase YKodaka NFukunaga KHonda TYasui YHiranuma HSakagami SKuraki TUeno MTakagi HAndo AAsahina APoisner HMOhba TYoshifuji AInomata MYoshiya KWada SMaeda YTanaka HMaeda SSugiura HTakeuchi MOmae YSekikawa YIchikado KTanaka AUeno TShiomi TIkeda TTomono KSuzuki AWada DSuda TTominaga YNakatsumi HOguma TMitamura KOhira YArase NArimura KTohda SSuzuki SSuzuki MShichinohe YSatomi RHayashi SSuzuki JShiroyama TNishida EHayashi RKaneyama YUeda KYagi KMurakami KKokuto HSuzuki YKoh HHagiwara SMurakami TNii THorikawa THida NFuchimoto YKawada MSuematsu RHagiwara EUeda SUeda TOkabayashi HMaeno THayashi KOno HMaruyama JNishida TBick AGShinoki MHase ITaki ROno AHizawa NKonno SGon YYoshiyama TTokunaga YOnoi KKanai TKurihara YYoshimura MTakoi HHirai YMiyagawa ITakita MMiyagawa KKanai MSaigusa MIchikawa MWang QSHashino TAdachi AIhn HArai DNarumoto OSeike MLee HOmote NKatayama KTanaka YKatayama IHara RYabukami HTanaka TAdachi YTerashima MAdachi TMiyachi HTokunaga KUno SOkuno TNagasaka TIkemura STakei RArai TFukuta TArai SArai RKono YTakaku YKoji SGoto YIto YTerai HFujitani SKoide RIto SKamiya AMasuzawa KIto FKoshida KNakachi IIto KMack TMNishimura TIto AYamamoto KNakajima KBaba HYamamoto MNakajima JTagaya EIsono TNakajima YBaba RMasaki KBaba TYamamoto YKodama NUmeda AHirata HFukushima SKunimoto KIwamura HShimoda MNarita ATakata THattori TNoguchi YKanaoka KNiwa KAnan RYamaguchi YKanayama STanizawa KOhmura KSaeki HKato KTani MOyama BMatsushita YImoto SSasano HMochimaru TTakeda NMorikawa DKato YIshikawa MYata TYamaguchi EOoshima NKitamura HKato TTakeda YKanehiro AIbata HNoguchi EOkada YKabata HNikaido TArakawa KOkada TMiyake TfalseBlood DNA virome associates with autoimmune diseases and COVID-19.Aberrant immune responses to viral pathogens contribute to pathogenesis, but our understanding of pathological immune responses caused by viruses within the human virome, especially at a population scale, remains limited. We analyzed whole-genome sequencing datasets of 6,321 Japanese individuals, including patients with autoimmune diseases (psoriasis vulgaris, rheumatoid arthritis (RA), systemic lupus erythematosus (SLE), pulmonary alveolar proteinosis (PAP) or multiple sclerosis) and coronavirus disease 2019 (COVID-19), or healthy controls. We systematically quantified two constituents of the blood DNA virome, endogenous HHV-6 (eHHV-6) and anellovirus. Participants with eHHV-6B had higher risks of SLE and PAP; the former was validated in All of Us. eHHV-6B-positivity and high SLE disease 2025-01-01T00:00:00Z2025 Jan2026-06-02T19:06:25.158Z2025-04-05T09:30:41.85ZS-EPMC117354053975377010.1038/s41588-024-02022-z