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A breakthrough in the projection theory of influenza virus evolution

Research Project

Project/Area Number 25291099
Research Category

Grant-in-Aid for Scientific Research (B)

Allocation TypePartial Multi-year Fund
Section一般
Research Field Ecology/Environment
Research InstitutionThe Graduate University for Advanced Studies

Principal Investigator

Sasaki Akira  総合研究大学院大学, その他の研究科, 教授 (90211937)

Project Period (FY) 2013-04-01 – 2017-03-31
Project Status Completed (Fiscal Year 2016)
Budget Amount *help
¥17,810,000 (Direct Cost: ¥13,700,000、Indirect Cost: ¥4,110,000)
Fiscal Year 2015: ¥5,460,000 (Direct Cost: ¥4,200,000、Indirect Cost: ¥1,260,000)
Fiscal Year 2014: ¥5,850,000 (Direct Cost: ¥4,500,000、Indirect Cost: ¥1,350,000)
Fiscal Year 2013: ¥6,500,000 (Direct Cost: ¥5,000,000、Indirect Cost: ¥1,500,000)
Keywordsインフルエンザウイルス / 進化予測 / 宿主免疫 / ベイズ予測域 / 抗原連続変異 / 多次元尺度法 / マルコフ連鎖 / A香港型 / 抗原進化予測 / ベイズ予測 / インフルエンザ / サブタイプ / 抗原エスケープ / 共進化 / 基本再生産数 / 進化速度 / ウイルス / 免疫系 / 疫学 / 進化 / 予測 / 数理モデル
Outline of Final Research Achievements

Human influenza viruses are known to escape continuously from host immune defense by accumulating mutations on hemagglutinin. A recent multivariate statistic technique has extracted their surprisingly simple evolutionary trajectories on a low dimensional projected trait spaces. Here I propose a simple Bayesian update model to reproduce such evolutionary trends.
In the model, a mutant that will cause epidemic in the next year is chosen randomly according the its probability of being generated by the parental strain, multiplied by its fitness determined by the past past infection history and accumulation of host herd immunity.
This model generates nearly linear trends in the series of epidemic strains placed on antigen space with a randomly chosen direction. The angles made by consecutive axes of annual antigenic changes are narrowly distributed around 0, and the distance between epidemic strains has a peaky distribution around the characteristic width of cross-immunity.

Report

(5 results)
  • 2016 Annual Research Report   Final Research Report ( PDF )
  • 2015 Annual Research Report
  • 2014 Annual Research Report
  • 2013 Annual Research Report
  • Research Products

    (54 results)

All 2017 2016 2015 2014 2013

All Journal Article (13 results) (of which Peer Reviewed: 13 results,  Acknowledgement Compliant: 2 results,  Open Access: 2 results) Presentation (35 results) (of which Int'l Joint Research: 1 results,  Invited: 16 results) Book (6 results)

  • [Journal Article] Partitioning light spectra: adaptive stratification of phytobenthic communities in Antarctic lakes2017

    • Author(s)
      Sasaki A, and Mizuno A
    • Journal Title

      J Theor Biol

      Volume: in press Pages: 1-10

    • DOI

      10.1016/j.jtbi.2017.04.022

    • Related Report
      2016 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Evolutionary branching under multi-dimensional evolutionary constraints2016

    • Author(s)
      Ito H, and Sasaki A
    • Journal Title

      J Theor Biol

      Volume: 407 Pages: 409-428

    • DOI

      10.1016/j.jtbi.2016.07.011

    • NAID

      120006629849

    • Related Report
      2016 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Spotting epidemic keystones by R0 sensitivity analysis: High-risk stations in the Tokyo metropolitan area2016

    • Author(s)
      Yashima K, and Sasaki A
    • Journal Title

      PLoS ONE

      Volume: 11:e0162406 Issue: 9 Pages: e0162406-e0162406

    • DOI

      10.1371/journal.pone.0162406

    • NAID

      120006667796

    • Related Report
      2016 Annual Research Report
    • Peer Reviewed / Open Access / Acknowledgement Compliant
  • [Journal Article] Beyond pairs: definition and interpretation of third-order structure in spatial point patterns2015

    • Author(s)
      Chiho Kaito, Ulf Dieckmann, Akira Sasaki and Fugo Takasu
    • Journal Title

      Journal of Theoretical Biology

      Volume: 372 Pages: 22-38

    • DOI

      10.1016/j.jtbi.2015.02.004

    • Related Report
      2016 Annual Research Report 2015 Annual Research Report
    • Peer Reviewed / Acknowledgement Compliant
  • [Journal Article] Epidemic process over the commute network in a metropolitan area2014

    • Author(s)
      Yashima K, Sasaki A
    • Journal Title

      Plos ONE

      Volume: 9 Issue: 6 Pages: e98518-e98518

    • DOI

      10.1371/journal.pone.0098518

    • NAID

      120006629850

    • Related Report
      2014 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Epidemic dynamics of a vector-borne disease on a village-and-city star network with commuters2014

    • Author(s)
      Emmanuel A. Mpolya, Kenta Yashima, Hisashi Ohtsuki, Akira Sasaki
    • Journal Title

      Journal of Theoretical Biology

      Volume: 343 Pages: 120-126

    • DOI

      10.1016/j.jtbi.2013.11.024

    • Related Report
      2014 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Timing and propagule size of invasion determine its success by a time-varying threshold of demographic regime shift2014

    • Author(s)
      Masato Yamamichi, Takehito Yoshida, Akira Sasaki
    • Journal Title

      Ecology

      Volume: 95 Issue: 8 Pages: 2303-2315

    • DOI

      10.1890/13-1527.1

    • NAID

      120005525667

    • Related Report
      2014 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Epidemic process over the commute network in a metropolitan area2014

    • Author(s)
      Kenta Yashima and Akira Sasaki
    • Journal Title

      PLoS ONE (in press)

      Volume: NA

    • NAID

      120006629850

    • Related Report
      2013 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Timing and propagule size of invasion determine its success by a time-varying threshold of demographic regime shift2014

    • Author(s)
      Masato Yamamichi, Takehito Yoshida, Akira Sasaki
    • Journal Title

      Ecology (in press)

      Volume: NA

    • NAID

      120005525667

    • Related Report
      2013 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Epidemic dynamics of a vector-borne disease on a village-and-city star network with commuters2014

    • Author(s)
      Emmanuel Abraham Mpolya, Kenta Yashima, Hisashi Ohtsuki, Akira Sasaki
    • Journal Title

      Journal of Theoretical Biology (in press)

      Volume: NA

    • Related Report
      2013 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Timing of the emergence of new successful viral strains in seasonal influenza2013

    • Author(s)
      Ryosuke Omori, Akira Sasaki
    • Journal Title

      Journal of Theoretical Biology

      Volume: 329 Pages: 32-38

    • Related Report
      2013 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Single-gene speciation with pleiotropy: Effects of allele dominance, population size, and delayed inheritance2013

    • Author(s)
      Masato Yamamichi, Akira Sasaki
    • Journal Title

      Evolution

      Volume: 67 Pages: 2011-2023

    • Related Report
      2013 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Limiting similarity, species packing, and the shape of competition kernels2013

    • Author(s)
      Olof Leimar, Akira Sasaki, Michael Doebeli, Ulf Dieckmann
    • Journal Title

      Journal of Theoretical Biology

      Volume: 2013 Pages: 3-13

    • Related Report
      2013 Annual Research Report
    • Peer Reviewed
  • [Presentation] A Bayesian updating model for the antigenic escapes of influenza virus subtypes2016

    • Author(s)
      Akira Sasaki
    • Organizer
      The 26th annual meeting of the Japanese Society for Mathematical Biology
    • Place of Presentation
      Kyushu University, Fukuoka.
    • Year and Date
      2016-09-07
    • Related Report
      2016 Annual Research Report
  • [Presentation] Network centrality measure based on sensitivity analysis of the basic reproductive ratio2016

    • Author(s)
      Kenta Yashima and Akira Sasaki
    • Organizer
      The 26th annual meeting of the Japanese Society for Mathematical Biology
    • Place of Presentation
      Kyushu University, Fukuoka.
    • Year and Date
      2016-09-07
    • Related Report
      2016 Annual Research Report
  • [Presentation] The coevolution of human antiviral protein APOBEC3G and HIV protein Vif: A theoretical study. Mathematical modeling for emerging infectious diseases.2015

    • Author(s)
      Akira Sasaki.
    • Organizer
      2015 Joint Meeting of The 5th China-Japan-Korea Colloquium on Mathematical Biology and The Japanese Society for Mathematical Biology
    • Place of Presentation
      Doshisha University, Kyoto, Japan
    • Year and Date
      2015-08-26
    • Related Report
      2015 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] ウイルスと宿主共進化の数理モデル2015

    • Author(s)
      佐々木顕
    • Organizer
      東大医科学研究所セミナー「生命科学における異分野融合」
    • Place of Presentation
      東大医科学研究所、白金台
    • Year and Date
      2015-05-26
    • Related Report
      2015 Annual Research Report
    • Invited
  • [Presentation] Discrete Species Packing and Evolved Neutrality in a Continuous Niche Space2015

    • Author(s)
      Akira Sasaki
    • Organizer
      Gordon Research Conference, Speciation 2015
    • Place of Presentation
      Four Point Sherraton, Ventura, California, USA
    • Year and Date
      2015-03-15 – 2015-03-20
    • Related Report
      2014 Annual Research Report
    • Invited
  • [Presentation] ウイルスの接触感染の進化シミュレーション / Evolution of contact dependent viral infection in vivo2015

    • Author(s)
      Saeki K, Sasaki A
    • Organizer
      ゲーム理論ワークショップ2015
    • Place of Presentation
      京都大学
    • Year and Date
      2015-03-06 – 2015-03-07
    • Related Report
      2014 Annual Research Report
  • [Presentation] Coevolutionary dynamics of human antiviral protein APOBEC3G and its viral antagonist Vif2014

    • Author(s)
      Akira Sasaki
    • Organizer
      Symposium "Dynamic interplay between viruses and their hosts"
    • Place of Presentation
      Pacifico Yokohama, Yokohama
    • Year and Date
      2014-11-08 – 2014-11-09
    • Related Report
      2014 Annual Research Report
    • Invited
  • [Presentation] Efficient disease control strategy in metropolitan area using sensitivity analysis of basic reproduction ratio R02014

    • Author(s)
      八島健太,佐々木顕
    • Organizer
      平成26年度九州大学IMI共同利用研究・研究集会(I)「感染症数理モデルの実用化と産業及び政策での活用のための新たな展開」
    • Place of Presentation
      JR博多シティ会議場, 福岡
    • Year and Date
      2014-10-01 – 2014-10-03
    • Related Report
      2014 Annual Research Report
  • [Presentation] Analysis of population dynamics in heterogeneous environment2014

    • Author(s)
      Yashima K, Suzuki SU, Sasaki A
    • Organizer
      The 52nd Annual Meeting of the Biophysical Society of Japan
    • Place of Presentation
      Sapporo Convention Center, Sapporo
    • Year and Date
      2014-09-25 – 2014-09-27
    • Related Report
      2014 Annual Research Report
  • [Presentation] Theories of arms race on complex genotype-phenotype mappings2014

    • Author(s)
      Akira Sasaki
    • Organizer
      JSMB/SMB 2014 Osaka. Minisymposium: "Dynamics of experimental evolution -- arms race and self-organization"
    • Place of Presentation
      Osaka International Convention Center,, Osaka, Japan
    • Year and Date
      2014-07-28 – 2014-08-01
    • Related Report
      2014 Annual Research Report
    • Invited
  • [Presentation] Evolution of Müllerian/Batesian mimicry on a two-dimensional trait space of warning signal and unpalatability2014

    • Author(s)
      Akira Sasaki
    • Organizer
      JSMB/SMB 2014 Osaka. Minisymposium: "Understanding mimicry -- evolutionary and developmental dynamics of signal sharing
    • Place of Presentation
      Osaka International Convention Center, Osaka, Japan
    • Year and Date
      2014-07-28 – 2014-08-01
    • Related Report
      2014 Annual Research Report
    • Invited
  • [Presentation] Evolution of contact dependent viral infection2014

    • Author(s)
      Saeki K, Sasaki A
    • Organizer
      Joint Annual Meeting of the Japanese Society for Mathematical Biology and the Society for Mathematical Biology
    • Place of Presentation
      Osaka International Convention Center, Osaka
    • Year and Date
      2014-07-28 – 2014-08-01
    • Related Report
      2014 Annual Research Report
  • [Presentation] A strain-age-dependent fitness model for viruses under selection by herd immunity.2014

    • Author(s)
      Miura C, Sasaki A
    • Organizer
      Joint Annual Meeting of the Japanese Society for Mathematical Biology and the Society for Mathematical Biology
    • Place of Presentation
      , Osaka International Convention Center, Osaka
    • Year and Date
      2014-07-28 – 2014-08-01
    • Related Report
      2014 Annual Research Report
  • [Presentation] Evolutionary constraints shape trait spaces and adaptive evolution2014

    • Author(s)
      Ito H, Sasaki A
    • Organizer
      Joint Annual Meeting of the Japanese Society for Mathematical Biology and the Society for Mathematical Biology
    • Place of Presentation
      , Osaka International Convention Center, Osaka
    • Year and Date
      2014-07-28 – 2014-08-01
    • Related Report
      2014 Annual Research Report
  • [Presentation] Host-symbiont coevolution in mutualisms enforced by sanction2014

    • Author(s)
      Uchiumi Y, Sasaki A, Ohtsuki H
    • Organizer
      Joint Annual Meeting of the Japanese Society for Mathematical Biology and the Society for Mathematical Biology
    • Place of Presentation
      Osaka International Convention Center, Osaka
    • Year and Date
      2014-07-28 – 2014-08-01
    • Related Report
      2014 Annual Research Report
  • [Presentation] Efficient disease control strategy in metropolitan area using sensitivity analysis of basic reproduction ratio R0.2014

    • Author(s)
      Yashima K and Sasaki A
    • Organizer
      oint Annual Meeting of the Japanese Society for Mathematical Biology and the Society for Mathematical Biology (JSMB/SMB 2014)
    • Place of Presentation
      ), Osaka International Convention Center, Osaka, Japan
    • Year and Date
      2014-07-25 – 2014-08-01
    • Related Report
      2014 Annual Research Report
  • [Presentation] The coevolution of human antiviral protein APOBEC3G and HIV protein Vif: A theoretical study.2014

    • Author(s)
      Akira Sasaki
    • Organizer
      The 11th Conference of European Society for Mathematical and Theoretical Biology (ESMTB 2014)
    • Place of Presentation
      Gothenburg, Sweden
    • Year and Date
      2014-06-15 – 2014-06-19
    • Related Report
      2014 Annual Research Report
    • Invited
  • [Presentation] Invasion threshold and evolution in spatially heterogeneous epidemic models2014

    • Author(s)
      Akira Sasaki
    • Organizer
      Workshop "Spatial evolutionary epidemiology"
    • Place of Presentation
      Le Hameau de l'Etoile, Montpellier, France
    • Year and Date
      2014-06-03 – 2014-06-07
    • Related Report
      2014 Annual Research Report
    • Invited
  • [Presentation] Evolution of Müllerian/Batesian mimicry spectra on a two-dimensional trait space of warning signal and unpalatability2014

    • Author(s)
      Akira Sasaki
    • Organizer
      JSMB/SMB 2014 Osaka. Minisymposium: Understanding mimicry --- evolutionary and developmental dynamics of signal sharing
    • Place of Presentation
      Osaka International Convention Center
    • Related Report
      2013 Annual Research Report
    • Invited
  • [Presentation] Theories of arms race on complex genotype-phenotype mappings2014

    • Author(s)
      Akira Sasaki
    • Organizer
      JSMB/SMB 2014 Osaka. Minisymposium: Dynamics of experimental evolution – arms race and self-organization
    • Place of Presentation
      Osaka International Convention Center
    • Related Report
      2013 Annual Research Report
    • Invited
  • [Presentation] Invasion threshold and evolution in spatially heterogeneous epidemic models2014

    • Author(s)
      Akira Sasaki
    • Organizer
      Workshop "Spatial evolutionary epidemiology"
    • Place of Presentation
      Le Hameau de l'Etoile, Montpelier, France
    • Related Report
      2013 Annual Research Report
    • Invited
  • [Presentation] The coevolution of human antiviral protein APOBEC3G and HIV protein Vif: A theoretical study2014

    • Author(s)
      Akira Sasaki
    • Organizer
      ESMTB 2014 Gothenberg. Minisymposium "Immuno-epidemiological models"
    • Place of Presentation
      the European Conference in Gothenburg, Gothenberg, Sweden
    • Related Report
      2013 Annual Research Report
    • Invited
  • [Presentation] Coevolutionary dynamics of human antiviral protein APOBEC3G and its viral antagonist Vif2014

    • Author(s)
      Akira Sasaki
    • Organizer
      新学術領域「感染コンピテンシ」国際シンポジウム "Dynamic interplay between viruses and their hosts"
    • Place of Presentation
      Undecided
    • Related Report
      2013 Annual Research Report
    • Invited
  • [Presentation] Coevolution of Vif and A3G expression levels: Struggle for mutability2014

    • Author(s)
      佐々木顕
    • Organizer
      新学術領域「感染コンピテンシ」第3回領域会議
    • Place of Presentation
      東大医科研
    • Related Report
      2013 Annual Research Report
  • [Presentation] 水平伝播によって共生相手を更新する双利共生系の維持機構2014

    • Author(s)
      内海邑・佐々木顕
    • Organizer
      第61回日本生態学会年会
    • Place of Presentation
      広島国際会議場
    • Related Report
      2013 Annual Research Report
  • [Presentation] 多次元形質空間における進化的制約下で進化的分岐が起こるための一般的条件2014

    • Author(s)
      伊藤洋・佐々木顕
    • Organizer
      第61回日本生態学会年会
    • Place of Presentation
      広島国際会議場
    • Related Report
      2013 Annual Research Report
  • [Presentation] 病原体の毒性進化解析:バクテリオファージにおける溶原、溶菌化の条件2014

    • Author(s)
      福世真樹・佐々木顕
    • Organizer
      第61回日本生態学会年会
    • Place of Presentation
      広島国際会議場
    • Related Report
      2013 Annual Research Report
  • [Presentation] 遺伝子対遺伝子相互作用で駆動されるイネいもち病菌レース頻度変動(新潟県、1965-2004)の進化時系列解析2014

    • Author(s)
      佐々木顕・中林潤
    • Organizer
      第61回日本生態学会年会
    • Place of Presentation
      広島国際会議場
    • Related Report
      2013 Annual Research Report
  • [Presentation] : Projecting evolutionary trajectory of influenza A virus: Multidimensional scaling and individual based antigenic drift model2013

    • Author(s)
      Akira Sasaki
    • Organizer
      Tsukuba Global Science Week 2013: International Life Science Workshop Systems Biology
    • Place of Presentation
      Tsukuba International Convention Center
    • Related Report
      2013 Annual Research Report
    • Invited
  • [Presentation] ウイルス複製機構とその進化を数理モデルでとらえる2013

    • Author(s)
      佐々木顕
    • Organizer
      第23回日本数理生物学会シンポジウム「計算ウイルス学の新局面」
    • Place of Presentation
      静岡大学.浜松
    • Related Report
      2013 Annual Research Report
    • Invited
  • [Presentation] Adaptive light absorption for protection and photosynthesis in layered plant community2013

    • Author(s)
      佐々木顕・田邊優貴子
    • Organizer
      総研大共同研究「惑星科学と生命科学の融合」第3回研究会
    • Place of Presentation
      清泉寮.山梨
    • Related Report
      2013 Annual Research Report
    • Invited
  • [Presentation] Evolution of viral multiplicity of infection (MOI) to get rid of free riding by defective viruses/Effective RNAi targeting agains plus-strand RNA virus2013

    • Author(s)
      佐々木顕
    • Organizer
      新学術領域「感染コンピテンシ」第1回領域会議
    • Place of Presentation
      湯河原
    • Related Report
      2013 Annual Research Report
  • [Presentation] ミトコンドリアの片親遺伝の進化: メタ個体群モデルによる検討2013

    • Author(s)
      内海邑・佐々木顕
    • Organizer
      第23回日本数理生物学会
    • Place of Presentation
      静岡大学.浜松
    • Related Report
      2013 Annual Research Report
  • [Presentation] 不均質環境下における個体群動態2013

    • Author(s)
      八島健太・鈴木清樹・佐々木顕
    • Organizer
      第23回日本数理生物学会
    • Place of Presentation
      静岡大学.浜松
    • Related Report
      2013 Annual Research Report
  • [Presentation] 培養系におけるウイルスの細胞間接触感染の進化シミュレーション2013

    • Author(s)
      佐伯晃一・佐々木顕
    • Organizer
      第23回日本数理生物学会
    • Place of Presentation
      静岡大学.浜松
    • Related Report
      2013 Annual Research Report
  • [Book] 「感染症の生態学」第22章 ヒトのインフルエンザ2016

    • Author(s)
      佐々木 顕
    • Publisher
      共立出版
    • Related Report
      2016 Annual Research Report
  • [Book] 「感染症の生態学」第10章 病原生物と宿主の進化.2016

    • Author(s)
      加茂将史・佐々木 顕
    • Publisher
      共立出版
    • Related Report
      2016 Annual Research Report
  • [Book] 病原体と宿主の進化.感染症の生態学2016

    • Author(s)
      加茂将史、佐々木顕
    • Total Pages
      356
    • Publisher
      共立出版
    • Related Report
      2015 Annual Research Report
  • [Book] ヒトのインフルエンザ.感染症の生態学2016

    • Author(s)
      佐々木顕
    • Total Pages
      356
    • Publisher
      共立出版
    • Related Report
      2015 Annual Research Report
  • [Book] 病原体と宿主の進化.『感染症の生態学』第9章(分担執筆・印刷中)2014

    • Author(s)
      加茂将史・佐々木顕
    • Publisher
      共立出版
    • Related Report
      2013 Annual Research Report
  • [Book] 行動学事典(分担執筆)2013

    • Author(s)
      佐々木顕
    • Total Pages
      637
    • Publisher
      東京化学同人
    • Related Report
      2013 Annual Research Report

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Published: 2013-05-21   Modified: 2019-07-29  

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