104 research outputs found
Out of Sight but Not Out of Mind? Behavioral Coordination in Red-Tailed Sportive Lemurs (Lepilemur ruficaudatus)
- Author
- A Agresti
- A Jaeggi
- A König
- AF Zuur
- AJ King
- B Limmer
- BCR Bertram
- C Fichtel
- C Fichtel
- C Fichtel
- C Schaik van
- C Schaik van
- Claudia Fichtel
- D Zinner
- DL Cheney
- G Kerth
- I Dostálková
- I Norscia
- IR Fischhoff
- J Altmann
- J Altmann
- J Cohen
- J Engel
- J Ganzhorn
- J Schmid
- J-P Sorg
- JJ Faraway
- KA Cortopassi
- KE Ruckstuhl
- KE Ruckstuhl
- L Barrett
- L Conradt
- L Conradt
- L Conradt
- L Pyritz
- M Rahlfs
- MA Elgar
- P Kappeler
- P Michelena
- PM Kappeler
- R Hilgartner
- R Hilgartner
- R Mundry
- RC Miller
- RD Alexander
- RE Dewar
- Roland Hilgartner
- S Gursky
- S Lima
- S Rensing
- SA Rands
- SA Rands
- T Caro
- TJ Valone
- TV Snaith
- Walter Zucchini
- WD Hamilton
- WK Vahl
- Publication venue
- Springer US
- Publication date
- 01/01/2011
- Field of study
Many animals are organized into social groups and have to synchronize their activities to maintain group cohesion. Although activity budgets, habitat constraints, and group properties may impact on behavioural synchrony, little is known regarding how members of a group reach a consensus on the timing of activities such as foraging bouts. Game theory predicts that pair partners should synchronize their activities when there is an advantage of foraging together. As a result of this synchronization, differences in the energetic reserves of the two players develop spontaneously and the individual with lower reserves emerges as a pacemaker of the synchrony. Here, we studied the behavioral synchrony of pair-living, nocturnal, red-tailed sportive lemurs (Lepilemur ruficaudatus). We observed 8 pairs continuously for ≥1 annual reproductive cycle in Kirindy Forest, Western Madagascar. During focal observations, one observer followed the female of a pair and, simultaneously, another observer followed the male. We recorded the location and behavioral state of the focal individual every 5 min via instantaneous sampling. Although behavioral synchrony of pair partners appeared to be due mainly to endogenous activity patterns, they actively synchronized when they were in visual contact (<10 m). Nevertheless, red-tailed sportive lemurs benefit from synchronizing their activity only for 15% of the time, when they are close together. The lack of an early warning system for predators and weak support for benefits via social information transfer in combination with energetic constraints may explain why red-tailed sportive lemurs do not spend more time together and thus reap the benefits of behavioral synchrony
On Vastness and Variability: Cultural Transmission, Historicity, and the Paleoindian Record in Eastern South America
- Author
- ANDREATTA MD
- ANDREFSKY WA
- ARAUJO AGM
- ARAUJO AGM
- ASTOLFO G.M. ARAUJO
- BARTON CM
- BATE LF
- BISSARO JR MC
- BLOUNT ZD
- BORRERO LA
- BORRERO LA
- BORRERO LA
- BORTOLINI M-C
- BRADLEY BA
- BUCHANAN B
- BUCHANAN B
- BUENO LM
- BUENO LM
- CALDARELLI SB
- CANNON MD
- CARDICH A
- CHMYZ I
- CHMYZ I
- CHMYZ I
- CHMYZ I
- CHMYZ I
- CHMYZ I
- CHMYZ I
- COLLARD M
- CONWAY MORRIS S
- COOPER TF
- DEBLASIS PAD
- DEETZ J
- DESJARDINS E
- DEWAR RE
- DIAS AS
- DIAS AS
- DIAS AS
- DIAS AS
- DIAS AS
- DIAS AS
- DIAS AS
- DIAS Jr OF
- DILLEHAY T
- DUNNELL RC
- DUNNELL RC
- EERKENS JW
- EERKENS JW
- FIEDEL SJ
- FOGAÇA E.
- GOULD SJ
- GUIDON N
- HAMILTON MJ
- HAMILTON MJ
- HAYNES CV
- HENRICH J
- HENRICH J
- HOELTZ S
- HUBBE A
- HURT WR
- ISNARDIS A
- JACOBUS AL
- JULIANI L.
- KASHIMOTO EM
- KAY M
- KELLY RL
- KIPNIS R
- KIPNIS R
- LANATA JL
- LAUDER GV
- LAUDER GV
- LELL JT
- LENSKI RE
- LIMA AP
- LIPO C
- MACDONALD DH
- MARTIN G
- MARTINS DC
- MAUSS M
- MAYR E
- MELTZER DJ
- MILLER ET
- MILLER ET
- NEVES WA
- NEVES WA
- NEVES WA
- NOELLI FS
- ODELL GH
- OKUMURA MM
- OLIVEIRA JE
- O´BRIEN MJ
- O´BRIEN MJ
- O´BRIEN MJ
- O´BRIEN MJ
- PALLESTRINI L
- PARELLADA CI
- PARENTI F
- PARRY WJ
- PERREAULT C
- PINHASI R
- PINHEIRO DE MELO P
- PLENS CR
- POWELL A
- PROUS A
- PROUS A
- PROUS A
- PÉREZ-LOZADA J
- RAILEY JA
- RIBEIRO PAM
- RIBEIRO PAM
- RIBEIRO PAM
- RIBEIRO PAM
- RINDOS D
- ROSA AO
- ROSEMBERG M
- SCHMITZ PI
- SCHMITZ PI
- SCHMITZ PI
- SCHMITZ PI
- SCHMITZ PI
- SCHMITZ PI
- SCHMITZ PI
- SCHMITZ PI
- SCHMITZ PI
- SHENNAN SJ
- SHENNAN SJ
- SMALLWOOD AM
- SOUZA-MARUZEK RR
- TRAVISANO M
- TRAVISANO M
- VERONEZE E
- WATERS MR
- WEBB RE
- WENINGER B
- WILLIAMS AN
- WUST I
- Publication venue
- 'FapUNIFESP (SciELO)'
- Publication date
- Field of study
Geographical and temporal distribution of SARS-CoV-2 clades in the WHO European Region, January to June 2020
- Author
- Aanensen D.
- Abdul-Wahab O.
- Abdullaev A.
- Abdurakhimov A.
- Aberle S.W.
- Abou Tayoun A.N.
- Abudahab K.
- Adams A.G.
- Adams O.
- Adriaenssens E.M.
- Advani A.
- Afifi S.
- Agerer B.
- Ahmad S.S.Y.
- Alessandrini F.
- Alikhan N.-F.
- Alm E.
- Alsheikh-Ali A.A.
- Andersen M.H.
- Andersson M.
- Andree M.
- Andres C.
- Angyal A.
- Anthony C.
- Anton A.
- Antonets D.V.
- Antwerpen M.
- Aranday-Cortes E.
- Ariën K.
- Asamaphan P.
- Avši?-Županc T.
- Awan A.R.
- Aydin A.
- Aydin G.
- Babinszky G.C.
- Bagnarelli P.
- Baker D.
- Baker P.
- Ball J.
- Barnes J.D.
- Bartolini B.
- Bashiardes S.
- Bashton M.
- Beckett A.
- Beer R.
- Beerenwinkel N.
- Behillil S.
- Beisel C.
- Belimezi M.
- Bergthaler A.
- Bibby D.
- Bicknell K.
- Bienkowska-Szewczyk K.
- Birchley A.
- Bizta P.
- Blum H.
- Bock C.
- Bodnev S.A.
- Bolt F.
- Bonsall D.
- Borges V.
- Bracho M.A.
- Bragstad K.
- Brandt J.
- Bresner C.
- Briksí A.
- Broberg E.K.
- Broddesson S.
- Broos A.
- Brown J.R.
- Brož P.
- Brunker K.
- Brytting M.
- Buck D.
- Bull M.
- Burián K.
- Butcher E.
- Caballero M.I.
- Caller L.G.
- Cancino-Muñoz I.
- Carbó-Ramirez S.
- Carlile M.
- Carmichael S.
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- Casas I.
- Castilletti C.
- Caucci S.
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- Chappell J.
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- Chaudhry Y.
- Chauhan A.
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- Clark G.
- Clementi N.
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- Comas I.
- Connor T.
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- Corden S.
- Cordey S.
- Cortes N.
- Coscollá M.
- Costa I.
- Cottrell S.
- Csoma E.
- Curran M.D.
- D'Agaro P.
- D'Auria G.
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- da Silva Filipe A.
- Dalimova D.
- Darby A.
- Davidson R.K.
- de Cesare M.
- de la Plaza I.C.
- de Marco G.
- de Oliveira Martins L.
- Debebe J.
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- The WHO European Region sequencing laboratories and GISAID EpiCoV group.
- Thomson E.
- Thomson N.M.
- Thürmer A.
- Tichá E.
- Timm J.
- Todd J.A.
- Tong L.
- Topolsky I.
- Torres-Puente M.
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- Trkola A.
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- Tryfonos C.
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- Tucker R.
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- Turdikulova S.
- Turtle L.
- Tutill H.J.
- Tóth G.E.
- Underwood A.
- Urbán P.
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- Publication venue
- Publication date
- 01/01/2020
- Field of study
We show the distribution of SARS-CoV-2 genetic clades over time and between countries and outline potential genomic surveillance objectives. We applied three available genomic nomenclature systems for SARS-CoV-2 to all sequence data from the WHO European Region available during the COVID-19 pandemic until 10 July 2020. We highlight the importance of real-time sequencing and data dissemination in a pandemic situation. We provide a comparison of the nomenclatures and lay a foundation for future European genomic surveillance of SARS-CoV-2.Peer reviewe
The impact of viral mutations on recognition by SARS-CoV-2 specific T cells.
- Author
- Aanensen DM
- Abudahab K
- Adams A
- Adams H
- Adeniji K
- Afifi S
- Aggarwal D
- Agranoff D
- Agwuh K
- Ahmad SSY
- Ahmed KA
- Aigrain L
- Ail D
- Alcolea-Medina A
- Aldera EL
- Alegria A
- Alex B
- Alikhan N-F
- Allara E
- Allen S
- Amato R
- Andrikopoulos P
- Angus B
- Angyal A
- Annett T
- Aplin S
- Ariani CV
- Armstrong JA
- Asad H
- Ash A
- Ashfield P
- Ashford F
- Ashish A
- Ashworth M
- Asiimwe IG
- Atkinson D
- Atkinson L
- Attwood SW
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- Aydin A
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- Baillie JK
- Baker DJ
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- Barlow SL
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- Barton E
- Bashton M
- Bassett AR
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- Beaver C
- Beckett AH
- Beckwith SM
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- Beer R
- Beggs A
- Bellis KL
- Bernatoniene J
- Berridge J
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- Bertolusso B
- Best A
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- Betteridge E
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- Bicknell K
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- Winchester S
- Wiselka M
- Witele E
- Withell KT
- Witney AA
- Wolverson A
- Wolverson P
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- xeine O'Toole
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- Yao X
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- Yew WC
- Ying Z
- Young GR
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- Young P
- Zambon M
- Zamudio ME
- Zarebski AE
- Zhang JE
- Zhang P
- Publication venue
- iScience
- Publication date
- 01/01/2021
- Field of study
We identify amino acid variants within dominant SARS-CoV-2 T cell epitopes by interrogating global sequence data. Several variants within nucleocapsid and ORF3a epitopes have arisen independently in multiple lineages and result in loss of recognition by epitope-specific T cells assessed by IFN-γ and cytotoxic killing assays. Complete loss of T cell responsiveness was seen due to Q213K in the A∗01:01-restricted CD8+ ORF3a epitope FTSDYYQLY207-215; due to P13L, P13S, and P13T in the B∗27:05-restricted CD8+ nucleocapsid epitope QRNAPRITF9-17; and due to T362I and P365S in the A∗03:01/A∗11:01-restricted CD8+ nucleocapsid epitope KTFPPTEPK361-369. CD8+ T cell lines unable to recognize variant epitopes have diverse T cell receptor repertoires. These data demonstrate the potential for T cell evasion and highlight the need for ongoing surveillance for variants capable of escaping T cell as well as humoral immunity.This work is supported by the UK Medical Research Council (MRC); Chinese Academy of Medical Sciences(CAMS) Innovation Fund for Medical Sciences (CIFMS), China; National Institute for Health Research (NIHR)Oxford Biomedical Research Centre, and UK Researchand Innovation (UKRI)/NIHR through the UK Coro-navirus Immunology Consortium (UK-CIC). Sequencing of SARS-CoV-2 samples and collation of data wasundertaken by the COG-UK CONSORTIUM. COG-UK is supported by funding from the Medical ResearchCouncil (MRC) part of UK Research & Innovation (UKRI),the National Institute of Health Research (NIHR),and Genome Research Limited, operating as the Wellcome Sanger Institute. T.I.d.S. is supported by a Well-come Trust Intermediate Clinical Fellowship (110058/Z/15/Z). L.T. is supported by the Wellcome Trust(grant number 205228/Z/16/Z) and by theUniversity of Liverpool Centre for Excellence in Infectious DiseaseResearch (CEIDR). S.D. is funded by an NIHR GlobalResearch Professorship (NIHR300791). L.T. and S.C.M.are also supported by the U.S. Food and Drug Administration Medical Countermeasures Initiative contract75F40120C00085 and the National Institute for Health Research Health Protection Research Unit (HPRU) inEmerging and Zoonotic Infections (NIHR200907) at University of Liverpool inpartnership with Public HealthEngland (PHE), in collaboration with Liverpool School of Tropical Medicine and the University of Oxford.L.T. is based at the University of Liverpool. M.D.P. is funded by the NIHR Sheffield Biomedical ResearchCentre (BRC – IS-BRC-1215-20017). ISARIC4C is supported by the MRC (grant no MC_PC_19059). J.C.K.is a Wellcome Investigator (WT204969/Z/16/Z) and supported by NIHR Oxford Biomedical Research Centreand CIFMS. The views expressed are those of the authors and not necessarily those of the NIHR or MRC
A generalized self-thinning relationship for multi-species and mixed-size forests
- Author
- A Mäkelä
- A Weiskittel
- AU Gül
- B Zeide
- B Zeide
- B Zeide
- BJ Enquist
- CW Woodall
- DE Weller
- EC Morris
- F Castedo-Dorado
- Gilles Le Moguedec
- H Bi
- H Henry
- H Pretzsch
- H Sterba
- J Enquist
- J White
- JH Reynolds
- JN Long
- K Yoda
- KJ Puettman
- L Zhang
- LH Reineke
- M Westoby
- Michaël Rivoire
- MJ Ducey
- RA Monserud
- RC Dewar
- RH Byrd
- RM Lanner
- S Hamilton
- TJ Drew
- U Berger
- WM Lonsdale
- Publication venue
- 'Springer Science and Business Media LLC'
- Publication date
- Field of study
Evaluating the Effects of SARS-CoV-2 Spike Mutation D614G on Transmissibility and Pathogenicity.
- Author
- Aanensen David M
- Abudahab Khalil
- Acheson Erwan
- Adams Alexander
- Adams Helen
- Adriaenssens Evelien M
- Afifi Safiah
- Aggarwal Dinesh
- Ahmad Shazaad SY
- Alam Mohammad T
- Alcolea-Medina Adela
- Alderton Alex
- Alikhan Nabil-Fareed
- Allan John
- Allara Elias
- Amato Roberto
- Andersson Monique
- Angyal Adrienn
- Aranday-Cortes Elihu
- Ariani Cristina
- Asad Hibo
- Asamaphan Patawee
- Ashworth Jordan
- Atkinson Laura
- Attwood Stephen
- Auckland Cressida
- Awan Ali R
- Aydin Alp
- Baker David J
- Baker Paul
- Balcazar Carlos E
- Ball Jonathan
- Barton Edward
- Bashton Matthew
- Batra Rahul
- Baxter Laura
- Beale Mathew A
- Beaver Charlotte
- Beckett Angela
- Beer Robert
- Beggs Andrew
- Bell Andrew
- Bellis Katherine L
- Berger Duncan J
- Berriman Matt
- Berry Lisa
- Berry Louise
- Betancor Gilberto
- Betteridge Emma
- Bewshea Claire M
- Bibby David
- Bicknell Kelly
- Birchley Alec
- Bird Paul
- Bishop Chloe
- Blane Beth
- Bolt Frances
- Bonsall David
- Boswell Tim
- Bosworth Andrew
- Bourgeois Yann
- Boyd Olivia
- Boyes John
- Bradley Declan T
- Bradshaw Daniel
- Breen Cassie
- Bresner Catherine
- Breuer Judith
- Bridgewater Hannah E
- Brooks Tony T
- Broos Alice
- Brown Julianne Rose
- Brown Paul E
- Brown Rebecca
- Brunker Kirstyn
- Bucca Giselda
- Buck David
- Buddenborg Sarah K
- Bull Matthew
- Bull Matthew
- Burton-Fanning Shirelle
- Butcher Ethan
- Caddy Sarah L
- Caller Laura G
- Campbell Sharon
- Carlile Matthew
- Carmichael Stephen N
- Casey Anna
- Castellano Sergi
- Chalker Vicki
- Chand Meera
- Chapman Michael R
- Chappell Joseph G
- Charalampous Themoula
- Charles Ian G
- Chaudhry Yasmin
- Chauhan Anoop J
- Cheng Jeffrey KJ
- Churcher Carol M
- Clark Gemma
- Coll Francesc
- Collins Jennifer
- Colquhoun Rachel
- Colquhoun Rachel M
- Connor Thomas R
- Connor Thomas R
- Constantinidou Chrystala
- Coombes Jason
- Corden Sally
- Cormie Claire
- Cortes Nicholas
- Cortes Nick
- Cottrell Simon
- Coupland Lindsay J
- Cowell Angela
- Cox Alison
- Craine Noel
- Cronin Michelle
- Crooke Derrick
- Curran Martin D
- Curran Tanya
- da Silva Filipe Ana
- da Silva Filipe Ana
- Dabrera Gavin
- Danesh John
- Darby Alistair C
- Davidson Rose K
- Davies Alisha
- Davis Thomas
- de Cesare Mariateresa
- De Lacy Elen
- de Oliveira Martins Leonardo
- de Silva Thushan I
- Debebe Johnny
- Dervisevic Samir
- Dewar Rebecca
- Dias Joana
- Diaz Maria
- Dibling Thomas
- Dorman Matthew J
- Downing Fatima
- Drury Eleanor
- du Plessis Louis
- Duckworth Nichola
- Dyal Patricia L
- Eccles Richard
- Edgeworth Jonathan
- Edwards Sue
- Eldirdiri Sahar
- Ellaby Nicholas
- Ellard Sian
- Elliott Scott
- Eltringham Gary
- Elumogo Ngozi
- Essex Sarah
- Evans Cariad
- Evans Johnathan M
- Eyre David
- Fairley Derek J
- Fallon Karlie
- Farbos Audrey
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- Foulser Luke
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- Fraser Christophe
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- Frost Lucy R
- Fuller William
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- Gaskin Amy
- Gatica-Wilcox Bree
- Gavriil Artemis
- Geidelberg Lily
- Geidelberg Lily
- Gemmell Matthew
- Georgana Iliana
- George Ryan P
- Gifford Laura
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- Gilroy Rachel AJ
- Girgis Sophia T
- Glaysher Sharon
- Golubchik Tanya
- Goncalves Sonia
- Goodfellow Ian
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- Goodwin Scott
- Graham Clive
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- Green Angie
- Green Luke R
- Greenaway Jane
- Gregory Richard
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- Groves Natalie
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- Gutierrez Ana Victoria
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- Heyburn David
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- Holden Matthew TG
- Holmes Alison
- Holmes Christopher
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- Hoosdally Sarah
- Hopes Richard
- Hosmillo Myra
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- Howson-Wells Hannah C
- Hubb Jonathan
- Hughes Joseph
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- Hutchings Stephanie
- Impey Robert
- Irish-Tavares Dianne
- Iturriza-Gomara Miren
- Jackson Ben
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- Jackson Kathryn A
- Jahun Aminu S
- James Keith
- Jamrozy Dorota
- Jarrett Ruth
- Jeffries Aaron R
- Jesudason Natasha
- Jesudason Natasha G
- John Michaela
- Johnson Kate
- Johnson Natasha
- Johnson Rob
- Johnson Robert
- Johnston Ian
- Jones Hannah
- Jones Katie
- Jones Rachel
- Jones Sophie
- Jorgensen David
- Jorgensen David
- Joseph Amelia
- Justice Anita
- Kane Leanne
- Kay Gemma L
- Kay Sally
- Keatley Jon-Paul
- Keeley Alexander J
- Kenyon Anita
- Kermack Leanne M
- Khakh Manjinder
- Khokhar Fahad A
- Kidd Stephen
- Kingsley Robert A
- Kitchen Christine
- Knight Bridget A
- Kolyva Anastasia
- Koshy Cherian
- Kraemer Moritz
- Kristiansen Mark
- Kumziene-Summerhayes Sara
- Kwiatkowski Dominic
- Lackenby Angie
- Langford Cordelia
- Lawniczak Mara
- Le-Viet Thanh
- Lee David
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- Yew Wen C
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- Young Jamie
- Yu Xiaoyu
- Zarebski Alex
- Publication venue
- Cell
- Publication date
- 01/09/2020
- Field of study
Global dispersal and increasing frequency of the SARS-CoV-2 spike protein variant D614G are suggestive of a selective advantage but may also be due to a random founder effect. We investigate the hypothesis for positive selection of spike D614G in the United Kingdom using more than 25,000 whole genome SARS-CoV-2 sequences. Despite the availability of a large dataset, well represented by both spike 614 variants, not all approaches showed a conclusive signal of positive selection. Population genetic analysis indicates that 614G increases in frequency relative to 614D in a manner consistent with a selective advantage. We do not find any indication that patients infected with the spike 614G variant have higher COVID-19 mortality or clinical severity, but 614G is associated with higher viral load and younger age of patients. Significant differences in growth and size of 614G phylogenetic clusters indicate a need for continued study of this variant
Finishing the euchromatic sequence of the human genome
- Author
- . Haifeng
- . Magner
- . Yin
- Abbott Scott
- Abbott-Ozersky Amanda
- Abdellah Zahra
- Abouelleil Amr
- Abrajano Anne
- Adachi Tamami
- Adam Catherine
- Adams Charles Q.
- Adamson Aaron
- Adekoya Emmanuel
- Adio-Oduola Babajide
- Aerts Andrea
- Aggarwal Arun
- Ahmadi Alireza
- Ahmed Shahana
- Aimable Matthew
- Ainscough Rachael
- Ait-Zahra Mostafa
- Aizu Tomoyuki
- Alcivare Dana
- Alegria Michelle
- Ali Alla
- Ali Johar
- Allegria-hartmann Michelle
- Alleman Jennifer
- Allen Carlana C.
- Allen Heather
- Allen Nicole R.
- Allen Susan
- Allen Thaddeus
- Almeida Jeff
- Almond Claire
- Alsbrooks Stephen L.
- Altherr Michael R.
- Amaratunge Harshinie C.
- Ambler Andrew
- Ambrose Karen
- Ambrose Kerrie
- Amemiya Chris
- Amico-Keller Gina
- Amin Amita G.
- Anderson Mechele
- Anderson Scott
- Anderson Scott
- Andora Janice
- Andredesz Carol
- Andrew Robert
- Andrews Dan
- Andrews Daniel
- Andrews Neil
- Andrews Stephanie
- Andriese Tim
- Anthouard Véronique
- Antonarakis Stylianos E.
- Anyalebechi Vivian
- Aoki Norie
- Apostolou Sinoula
- Apweiler Eva
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- Arellano Andre
- Arellano-Jones Perry
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- Armstrong Jon
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- Arredondo Heather Hope
- Artiguenave François
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- Han Xurong
- Hanak Vincent A.
- Hancock Julie
- Harbes Brandy A.
- Harding Adam
- Harkins C. Richard
- Harley Joanne
- Harper David
- Harper Georgina
- Harper Patrik
- Harradence Grant
- Harris Anthony
- Harrison Charlene-Lou
- Harrison Elliot
- Harrison Ruth
- Hart Elizabeth
- Hasegawa Tomoko
- Hashimoto Etsuko
- Hashimoto Wakako
- Hassan Daniel
- Hatcher Beath
- Hattori Masahira
- Haugen Eric
- Haussler David
- Havlak Paul
- Hawes Alicia C.
- Hawkins Ebere Sylvia Onyirioha
- Hawkins Natalie
- Hawkins Trevor
- Hawley Kellie
- Haydu Lauren
- Hayes Kerry
- He Fengying
- He Jiaying
- He Lin
- Heaford Andrew
- Heath Paul
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- Heilig Roland
- Heiner Cheryl
- Heinze Ivonne
- Heitmann Katja
- Helfenbein Keven
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- Hellsten Uffe
- Hembry Cathy
- Henderson Carl
- Henderson Nicholas
- Henderson Nina
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- Henning Karla
- Hepa Victor
- Herd Tim
- Herman Charles
- Hernandez Judith
- Hernandez Omar
- Herseim Allyson
- Hewitt Stephen
- Heyen Joshua
- Higgs Douglas
- Hildebrand Carl E.
- Hillier LaDeana
- Hillyard Guy
- Hines Sandra
- Hinkins Russell
- Hinrichs Angela S.
- Hitchens Matthew Edward
- Ho Issac
- Ho Sara-Jane
- Hodgson Anne V.
- Hodgson David
- Hoffman Susan M.G.
- Hoffs Michael
- Hogues Marilyn E.
- Holden Jane
- Holdgate Janet
- Hollaway Mara
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- Holloway Ele
- Holmes Andrea
- Holmes Ian
- Holmes Sarah
- Holroyd Simon
- Holtz Ann
- Holtzer Caleb
- Homsi Deana K.
- Homsi Farah J.
- Honan Tracy
- Hood Leroy
- Hooper Alison
- Hopewell Lucy
- Hopkins Ben
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- Hornett Gary
- Hornischer Klaus
- Hornsby Amber
- Hornsby Geoff
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- Howden Philip
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- Howell Latoya Lynette
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- Huang Fang
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- Huang Wei
- Huang Wei
- Huang Zhengping
- Hubbard Timothy
- Huber James W.
- Huckle Elizabeth
- Hue Heather
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- Hughes Jennifer
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- Hunt Paul
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- Hunter Giselle
- Hunter Rov, II
- Hupman Matt
- Huynh Sandy
- Hyde David
- Hynds Christopher
- Idlebird Devincent G.
- Iliev Ilian
- Imbro Paula
- Imo Kelvin C.
- Inacio Nicole
- Inagaki Naomi
- Ince Michael
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- Isak Amber
- Isherwood Judith
- Ishibashi Akiko
- Ishikawa Sabine K.
- Ishizaki Hinako
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- Itoh Takehiko
- Iwakawa Shinobu
- Iwatate Mariko
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- Izatt Janet
- Izmajlowicz Monica
- Izumiyama Tomohiro
- Jacintho Mark
- Jackson Laronda R.
- Jackson Terri
- Jacob Leni Susan
- Jaeger Sara
- Jaffe David B.
- Jahn Niels
- Jaklevic Joseph
- Jaklevic Michael
- James Kent W.
- Jareborg Niclas
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- Jassal Bijay
- Jeffery Grant
- Jeffery Kim
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- Jekosch Kerstin
- Jenkins Lee
- Jett Jamie
- Jewett Phillip E.
- Jia Jia
- Jia Jia
- Jia Nan
- Jia Xingchang
- Jiang Lu
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- Jones Myrna D.
- Jones Steven
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- Keen Gifford
- Keenan Stephen
- Kegelmeyer Laura
- Kegg Lisa
- Kelley Simon
- Kells Cristyn
- Kelly Shayna P.
- Kelly Susan H.
- Kershaw Joanna
- Kettleborough Ross
- Keys David
- Khan Arsi
- Khan Umer F.
- Khan Ziad Mohid
- Khine Susu
- Khurama Divya
- Kidd Cathy
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- Kim Jennifer
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- Klingle Gillian
- Knights Andrew
- Kobayashi Mai
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- Kohlberg Sara
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- Kolbe William
- Kong Yi
- Korf Ian
- Kosiura Anna
- Kou Zhaohui
- Kovar Christie L.
- Krawczyk Marie-Claude
- Kremitzki Colin
- Kremmidiotis Gabriel
- Krogh Anders
- Kronmiller Brent
- Kruchowski Scott S.
- Kube Michael
- Kubischta Duane
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- Kuehl Jennifer
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- Kulish Larissa
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- Laing Michael
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- Lam Edward
- Lam Marissa
- Lama Dawa
- Lamar Betty
- Lambart Christine
- Lamble Ralph
- Lamerdin Jane E.
- Lander Eric S.
- Landers Tom
- Langford Cordelia
- Lansang Christine
- Lao Victoria
- Lapidus Alla
- Larke Ben
- Lato Bernadette
- Latreille Phil
- Lau Timun
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- Lehman Karl
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- Lei Meng
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- Levan Jaclyn M.
- Leversha Margaret
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- Levy Andrew
- Levy Michaël
- Lewis Doreen
- Lewis Ernest K.
- Lewis Keith
- Lewis Lakeshia C.
- Lewis Lora R.
- Lewis Tammy
- Leyba Tina
- Li Changfeng
- Li Chenji
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- Li Jiayang
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- Li Zhangwan
- Lieuallen Kim
- Lightning Julia
- Lim Meng K.
- Lindblad-Toh Kerstin
- Lindo Ken
- Lindquist K.
- Lindsay Sarah
- Lindstrom Kirsten
- LIne Matthew
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- Linkowski Albert
- Linsdell Sally
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- Liu Yu
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- Lock William
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- London Pamela
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- Longmire Johnathan L.
- Lopez Frederick
- Lopez John
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- Lopez Lora
- Loraine Howard
- Lord Rachel
- Lorensuhewa Lorna M.
- Lou Yunian
- Loulseged Hermela
- Loveland Jane
- Lovell Jamie
- Lovett Demetria A.
- Lowenstein Michael G.
- Lowry Stephen
- Lozado Ryan J.
- Lu Lingfeng
- Lu Tao
- Lu Xiuhua
- Lu Yongxiang
- Lu Yontao T.
- Lu Yue
- Lucas Robert
- Lucas Susan
- Lucier Alice
- Lucier Raymond L.
- Ludeman Thom
- Lui Annie
- Lundgren Lyndsey
- Luo Chunqing
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- Lv Gang
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- Machrus Migdad
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- Macken Catherine A.
- MacLean Christine
- Madabhushi Ramki
- Madu Renita C.
- Maeda Hideto
- Maglott Donna
- Maheshwari Manjula
- Mahindartne Mathew
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- Mahnke Ryan
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- Malfatti Stephanie
- Malloy Kevin
- Maltbie Mary I.
- Mangum Brian
- Manning Jonathan
- Manohar Chitra
- Mapua Patricia
- Marabella Dick
- Mardis Elaine R.
- Mareth David
- Mariano Marisa
- Marinelli Lisa
- Mark Graham A.
- Marquis-Homeyer Catherine
- Marr Thomas G.
- Marra Marco
- Marriott Neil
- Marrone Anne
- Marroquin Christian
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- Matthews Charles D.
- Matthews Lucy
- Matthews Nick
- Matthews Paul
- Matthews Sterling D.
- Mauceli Evan
- Maunes Cynthia
- Maupin Rachel
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- McLean James
- McLellan Michael D.
- McLeod Michael P.
- McMurdo John
- McMurray Amanda
- McMurray Des
- McMurray Kimberly
- McMurray Kimberly L.
- McNinch Jenny
- McPherson John
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- McVicker Graham
- McWilliams Natalie
- Mead Kelly
- Meador Michael G.
- Medina Catherine
- Mehta Nalini
- Meidi Patrick
- Meier Elke
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- Mejima Mio
- Meldrim James
- Melsopp Craig
- Mendez Sylvia
- Meneus Louis
- Meng Shanshan
- Menuge Noel
- Mercado Christian
- Mercado George
- Mercado Iracema C.
- Mercer Simon
- Merritt Christina E.
- Mesirov Jill P.
- Metzker Michael Lee
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- Mileur Mason W.
- Miller Christie
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- Miner George R.
- Miner Sheri
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- Minja Emmanuel
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- Misra Monica
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- Morgan Margaret B.
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- Morton Jerry
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- Mott Richard
- Moyzis Robert K.
- Mu Feng
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- Mullenger Ian
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- Mulrain Leon
- Munday Brian
- Munday Elaine
- Mundt Mark O.
- Mungall Andy
- Munidasa Mala
- Munk A. Christine
- Munk Christie A.
- Munson Glen
- Murakami Katsuhiko
- Murayama Yuji
- Murnane Clare
- Murphy Matthew B.
- Murphy Michael
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- Nagamine Kentaro
- Nagao Syunsuke
- Nagaraja R.
- Nair Latha
- Nair Seema R.
- Naka Maho
- Nakagawa Masayo
- Nakagawa Saori
- Nakamura Etsuko
- Nakato Eriko
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- Nandkeshwar Richard
- Nankervis Colin E.
- Naranjo Cleo M.
- Nash William
- Naylor Jerome
- Nazareth Lynne V.
- Neal Dearl D.
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- Nelson Catherine
- Nelson David O.
- Nelson Deborah A.
- Nelson Joanne
- Nelson Kathryn
- Nelson Ward
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- Neunkirch Jennifer
- Newes Christian
- Newman April
- Ng Bee
- Ng Terrance
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- Nguyen Minh
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- Nguyen Natalie M.
- Nguyen Ngoc Bich
- Nguyen Thu
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- Nickerson Tim
- Nicol Robert
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- Ning Zemin
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- Nivens Amber
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- Norbu Chou Dolma
- Norbu Nyima
- Nordsiek Gabriele
- Norris Sarah Louise
- Novik Karen
- Nowlin Larry
- Nusbaum Chad
- Nwaokelemeh Ogechi O.
- Nwokenkwo Stanley
- O\u27Donnell Paula
- O\u27Donovan Daniel
- O\u27Leary Sinead
- O\u27Loughlin Jennifer
- O\u27Neill Keith
- Obayashi Izumi
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- Oinn Tom
- Okoawo Ose
- Okui Michiyo
- Okumura Reina
- Okwuonu Geoffrey O.
- Okwuonu Kenneth C.
- Olarnpunsagoon Alisa
- Olivas Jason
- Oliver Hayley
- Oliver Karen
- Olsen Anne S.
- Olson Maynard V.
- Omotosho Bamidele
- Onoda Junko
- Oomori Nobuhiro
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- Oragunye Njideka
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- Ovcharenko Ivan
- Overton-Larty Emma
- Oviedo Rodolfo J.
- Ow David
- Ozawa Ritsuko
- Ozersky Philip
- Pace Araceli C.
- Pack Elizabeth
- Padki Anuradha
- Pahlavan Shane
- Palaniappan Krishnaveni
- Palazzolo Michael
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- Pan Jiaofeng
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- Panasenko Vladimir
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- Parker Stephen
- Parkin Christopher
- Parkin Kim
- Parks Kenya L.
- Parry-Brown Ginny
- Parson-Quintana Beverly
- Pasternak Shiran
- Patel Bella Mayurkumar
- Patel Dina
- Patel Jalpa N.
- Patel Ritesh
- Patel Shripa
- Patel Vishal V.
- Patrick James
- Paul Heidie A.
- Paul Shelia
- Paulson Edward
- Payton Brett A.
- Pearce Alexandra
- Pearman Charlene
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- Peck Richard
- Pedan John
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- Pelletier Eric
- Peng Vivian
- Peng Vivian
- Peng Yi
- Peng Yi
- Peng Ze
- Peng Ze
- Pennacchio Len A.
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- Percy Chantel
- Perez Agapito
- Perez Lesette M.
- Perito Andrew
- Perrault Isabelle
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- Pesavento Brad
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- Peterson Jane
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- Polman Jos
- Ponting Chris P.
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- Porter Keith
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- Poundstone Pat
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- Prathalingham Radhika
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- Primus Jennifer
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- Qiang Boqin
- Qiao Zhenyong
- Qin Xiang
- Quail Michael
- Quan Glenda
- Quarrie Hannah
- Quiles Miyo M.
- Quince Chris
- Quiroz Juana B.
- Qureshi Matloob
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- Rachlin Eric K.
- Rachupka Anthony
- Radionenko Maxim
- Rajagopal Mohan
- Ramasami Umadevi
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- Reigh Richard A.
- Reily Amy D.
- Reinhardt Astrid
- Reinhardt Richard
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- Ren Shuangxi
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- Richard Suzzanne
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- Richardson Kristi
- Richardson Paul
- Richardson Paul
- Richardson Susan
- Ricke Darryl O.
- Ridler Kerry
- Riethman Harold
- Riethoven Lyn
- Rigby Rachel
- Riley B.E
- Rise Cecil
- Rivera Angel
- Rives Catharine M.
- Road JungShing
- Robert Catherine
- Roberts Simon
- Robinson Chris
- Robinson Dezere
- Robinson Donna I.
- Robinson Donna L.
- Robinson Melanie
- Rochford Rebecca
- Rock Susan M.
- Rodkey Travis L.
- Rodriguez Alex
- Rodriguez Joseph
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- Rogers Jane
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- Rohlfing Theresa
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- Rong Li
- Rong Li
- Rosenbloom Kate R.
- Roskin Krishna M.
- Ross Hugh
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- Rowen Lee
- Rubenfield Marc
- Rubin Edward M.
- Ruef Barbara
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- Ruiz San Juana
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- Russell Ben
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- Safdar Kamal
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- Santibanez Jireh
- Santoyo-Lopez Javier
- Sanuki Naoko
- Sarmiento R.
- Sasaki Takashi
- Satpathy Suraj
- Saunders David
- Saunders Elizabeth H.
- Saurin William
- Savery Glenford G.
- Sawada Nori
- Sawhill William W.
- Saxman Eric
- Scarpelli Claude
- Scharfe Maren
- Schatzkamer Kyriena L.
- Scherer Steven Edward
- Schilhabel Markus
- Schlessinger David
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- Shin Maria
- Shindoh Nobuaki
- Shintani Ai
- Shiohama Aiko
- Shoji Minami
- Shotland Yoram
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- Zhang Guangyu
- Zhang Guohua
- Zhang Guohua
- Zhang Haiqing
- Zhang Haiqing
- Zhang Haiqing
- Zhang Hongbo
- Zhang Hongbo
- Zhang Jingjing
- Zhang Jingjing
- Zhang Jingkun
- Zhang Jiuchun
- Zhang Jiuchun
- Zhang Lanzhi
- Zhang Li
- Zhang Li
- Zhang Meihua
- Zhang Meng
- Zhang Ming
- Zhang Qing
- Zhang Ruhua
- Zhang Shaojie
- Zhang Tiezhen
- Zhang Wei
- Zhang Wei
- Zhang Xianglin
- Zhang Xianglin
- Zhang Xiaoliang
- Zhang Xiuqing
- Zhang Yan
- Zhang Yi
- Zhang Yilin
- Zhang Yilin
- Zhang Ying
- Zhang Yuansen
- Zhang Yuzhi
- Zhang Zhengdong
- Zhao Hongmei
- Zhao Lijian
- Zhao Shenru
- Zhao Zhijing
- Zhen Zhicheng
- Zheng Haibo
- Zhong Ming
- Zhou Carol
- Zhou Haixia
- Zhou Jianling
- Zhou Nannan
- Zhou Xinfeng
- Zhou Yan
- Zhou Yang
- Zhou Yi
- Zhu Bingying
- Zhu Bofeng
- Zhu Fenghua
- Zhu Genfeng
- Zhu Genfeng
- Zhu Miao
- Zhu Ning
- Zhu Yongge
- Zhu Zhen
- Zhuang Shitao
- Zierten Deborah
- Zimmer Andrew
- Zody Michael C.
- Zollo Massimo
- Zorrilla Sara E.
- Zuo Lin
- Publication venue
- LSU Digital Commons
- Publication date
- 21/10/2004
- Field of study
The sequence of the human genome encodes the genetic instructions for human physiology, as well as rich information about human evolution. In 2001, the International Human Genome Sequencing Consortium reported a draft sequence of the euchromatic portion of the human genome. Since then, the international collaboration has worked to convert this draft into a genome sequence with high accuracy and nearly complete coverage. Here, we report the result of this finishing process. The current genome sequence (Build 35) contains 2.85 billion nucleotides interrupted by only 341 gaps. It covers ∼99% of the euchromatic genome and is accurate to an error rate of ∼1 event per 100,000 bases. Many of the remaining euchromatic gaps are associated with segmental duplications and will require focused work with new methods. The near-complete sequence, the first for a vertebrate, greatly improves the precision of biological analyses of the human genome including studies of gene number, birth and death. Notably, the human enome seems to encode only 20,000-25,000 protein-coding genes. The genome sequence reported here should serve as a firm foundation for biomedical research in the decades ahead
Recurrent SARS-CoV-2 mutations in immunodeficient patients
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- Zarebski A. E.
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- Publication venue
- 'Oxford University Press (OUP)'
- Publication date
- 11/08/2022
- Field of study
Long-term severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) infections in immunodeficient patients are an important source of variation for the virus but are understudied. Many case studies have been published which describe one or a small number of long-term infected individuals but no study has combined these sequences into a cohesive dataset. This work aims to rectify this and study the genomics of this patient group through a combination of literature searches as well as identifying new case series directly from the COVID-19 Genomics UK (COG-UK) dataset. The spike gene receptor-binding domain and N-terminal domain (NTD) were identified as mutation hotspots. Numerous mutations associated with variants of concern were observed to emerge recurrently. Additionally a mutation in the envelope gene, T30I was determined to be the second most frequent recurrently occurring mutation arising in persistent infections. A high proportion of recurrent mutations in immunodeficient individuals are associated with ACE2 affinity, immune escape, or viral packaging optimisation.There is an apparent selective pressure for mutations that aid cell–cell transmission within the host or persistence which are often different from mutations that aid inter-host transmission, although the fact that multiple recurrent de novo mutations are considered defining for variants of concern strongly indicates that this potential source of novel variants should not be discounted. © The Author(s) 2022. Published by Oxford University Press
An integrated national scale SARS-CoV-2 genomic surveillance network
- Author
- Aanensen DM
- Abudahab K
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- Afifi S
- Alam MT
- Alderton A
- Alikhan N-F
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- Almsaud M
- Alrezaihi A
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- Amato R
- Andersson M
- Angyal A
- Aranday-Cortes E
- Ariani C
- Armstrong SD
- Asamaphan P
- Attwood S
- Aydin A
- Badhan A
- Baker D
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- Balcazar CE
- Ball J
- Barton AE
- Bashton M
- Baxter L
- Beale M
- Beaver C
- Beckett A
- Beer R
- Beggs A
- Bell A
- Bellis KL
- Bentley EG
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- Betteridge E
- Bibby D
- Bicknell K
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- Bolt F
- Bonsall DG
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- Bourgeois Y
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- Brown JR
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- Bucca G
- Buck D
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- Caller LG
- Cambell S
- Carlile M
- Carmichael S
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- Clark G
- Clark JJ
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- Connor TR
- Constantinidou C
- Coombes J
- Corden S
- Cottrell S
- Cowell A
- Curran MD
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- Dabrera G
- Danesh J
- Darby AC
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- De Silva TI
- Debebe B
- Dervisevic S
- Dewar RA
- Dia M
- Dorman M
- Dougan G
- Dover L
- Downing F
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- Du Plessis L
- Dyal PL
- Eccles R
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- Eltringham G
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- Gavriil A
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- Gilbert L
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- Girgis S
- Glaysher S
- Golubchik T
- Goncalves S
- Goodfellow I
- Goodwin S
- Graham C
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- Greenaway J
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- Tucker RM
- Tutill HJ
- Underwood A
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- Vamos E
- Vasylyeva T
- Vattipally S
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- Vipond B
- Volz EM
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- Yew WC
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- Zarebski A
- Publication venue
- 'Elsevier BV'
- Publication date
- 01/06/2020
- Field of study
Genomic reconstruction of the SARS-CoV-2 epidemic in England.
- Author
- Aanensen DM
- Abnizova I
- Abudahab K
- Adams A
- Adams H
- Afifi S
- Aggarwal D
- Ahmad SSY
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- Alcolea A
- Alderton A
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- Allara E
- Allen L
- Amato R
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- Annett T
- Aplin S
- Ariani C
- Ariani CV
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- Ashfield P
- Ashford F
- Atkinson L
- Attwood SW
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- Austin-Guest S
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- Bashton M
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- Bassett AR
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- Battleday K
- Baxter C
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- Beal J
- Beale M
- Beaver C
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- Bedford L
- Beer R
- Beggs A
- Bellany S
- Bellerby T
- Bellis K
- Bellis KL
- Berger D
- Berriman M
- Berry L
- Bertolusso B
- Best A
- Betteridge E
- Bevan P
- Bibby D
- Bicknell K
- Binley S
- Binns D
- Birchley A
- Bird PW
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- Bonsall D
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- Bosworth A
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- Bourgeois Y
- Bowker S
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- Bradley DT
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- Bresner C
- Breuer J
- Bridgett S
- Bronner I
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- Chalker V
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- Chatterton W
- Chaudhry Y
- Chillingworth T-J
- Churcher CM
- Clapham P
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- Clarke P
- Cogger BJ
- Cole D
- Cole K
- Collins J
- Colquhoun R
- Connor TR
- Cook E
- Cook KF
- Coombes J
- Coppola M
- Corden S
- Cormie C
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- Darby AC
- Davidson RK
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- Easton LJ
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- Eltringham G
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- Gallagher MD
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- Nathwani C
- Naydenova P
- Neaverson A
- Nebbia G
- Nelson A
- Nelson C
- Nelson R
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- Nicholls S
- Nichols J
- Nicholson J
- Nicodemi R
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- Pardubska B
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- Twohig KA
- Umpleby H
- Underwood AP
- Ungureanu D
- Uphill J
- Urbanova J
- Vamos EE
- Van Vuuren PJ
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- Vasylyeva TI
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- Verdejo CJ
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- Wheeler H
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- Whitehead M
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- Wierzbicki C
- Willford NJ
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- Zamudio ME
- Zarebski AE
- Zhang P
- Publication venue
- Nature
- Publication date
- 01/01/2021
- Field of study
The evolution of the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) virus leads to new variants that warrant timely epidemiological characterization. Here we use the dense genomic surveillance data generated by the COVID-19 Genomics UK Consortium to reconstruct the dynamics of 71 different lineages in each of 315 English local authorities between September 2020 and June 2021. This analysis reveals a series of subepidemics that peaked in early autumn 2020, followed by a jump in transmissibility of the B.1.1.7/Alpha lineage. The Alpha variant grew when other lineages declined during the second national lockdown and regionally tiered restrictions between November and December 2020. A third more stringent national lockdown suppressed the Alpha variant and eliminated nearly all other lineages in early 2021. Yet a series of variants (most of which contained the spike E484K mutation) defied these trends and persisted at moderately increasing proportions. However, by accounting for sustained introductions, we found that the transmissibility of these variants is unlikely to have exceeded the transmissibility of the Alpha variant. Finally, B.1.617.2/Delta was repeatedly introduced in England and grew rapidly in early summer 2021, constituting approximately 98% of sampled SARS-CoV-2 genomes on 26 June 2021
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