2712 Lawrence Hudson | Natural History Museum

Dr Lawrence Hudson

Dr Lawrence Hudson

Developer - Open Data and Innovation

Department: Life Sciences
Division: LS Diversity and Informatics Division
Contact: email
Google Scholar
ResearchGate
figshare

Specialisms

biodiversity, data analysis, data visualisation, digitisation, food webs, informatics, scientific software

Summary

I work in the museum's informatics group on a number of projects related to the digitisation of collections. I work with other scientists and with curators to achieve the museum's goal of digitising 20 million of our 80 million specimens by 2020. I develop processes and software to make possible the high-throughput digital imaging that this target requires, such as the automated segmentation of scanned images of multiple specimens, reading barcodes within images and annotation of metadata. The Inselect software package is a major output of my work. I also work on PREDICTS (Projecting Responses of Ecological Diversity In Changing Terrestrial Systems) - a collaborative project that is investigating how biodiversity in terrestrial communities responds to human pressures. We model biodiversity responses at a global scale using data collected at local levels. My main job in the team is to produce software to handle all aspects of the project's data including collation, validation, curation, visualisation and extraction. The project has collated more 3 million biodiversity measurements. During my PhD I investigated the relationship between dynamics and structure of multi-trophic ecological communities, in particular the modelling approach proposed by Yodzis & Innes, 1992. Mathematical models of the dynamics of systems of realistic complexity have a large number of unmeasured parameters, and whole-community data are limited and typically comprise only a snapshot or time-averaged picture. Yodzis & Innes proposed a dynamical model that is parameterised using physiological allometries - empirically-observed inter-specic power-law relationships between physiological rates and body masses. I examined this modelling approach and some of its assumptions. Outcomes of this work are 1) publication of a new dataset of field metabolic rate data of individual birds and mammals together with an analysis of these data using linear mixed-effects models, leading to a better understanding of one of the model's principal assumptions, 2) an open-source R package for analysing and visualising empirical food-web data, 3) an open-source R package for simulating community dynamics using the model of interest and 4) validation of the model's ability to recreate static patterns seen in empirical community data. I love working with open-source software, particularly Python, Linux, PostgreSQL, PostGIS, R, Qt and OpenCV.

Qualifications

Degrees

PhD Computational Ecology, Imperial College London, United Kingdom, 2009 - 2012

MSc Ecology, Evolution and Conservation, Imperial College London, United Kingdom, 2008 - 2009

Employment history

Academic

Developer - open data and innovation, Natural History Museum, Informatics, United Kingdom, 2016 - ongoing

Digitisation System Engineer, Natural History Museum, Informatics, United Kingdom, 2014 - 2015

Post-doctoral Research Associate, PREDICTS project, Natural History Museum, United Kingdom, 2013 - 2015

Post-doctoral Research Associate, PREDICTS project, Imperial College London, United Kingdom, 2012 - 2013

Highlighted publications

Newbold T, Hudson LN, Arnell AP, Contu S, De PalmaA, et al. (2016) Has land use pushed terrestrial biodiversity beyond the planetary boundary? A global assessment. Science, 353 (6296) : 288 - 291. doi: 10.1126/science.aaf2201

Hudson LN, Blagoderov V, Heaton A, Holtzhausen P, Livermore L, et al. (2015) Inselect: Automating the Digitization of Natural History Collections. PLOS ONE, 10 (11) : e0143402 - e0143402. doi: 10.1371/journal.pone.0143402

Hudson LN, Newbold T, Contu S, Hill SLL, Lysenko I, et al. (2014) The PREDICTS database: a global database of how local terrestrial biodiversity responds to human impacts. Ecology and Evolution, 4 (24) : 4701 - 4735. doi: 10.1002/ece3.1303

Grants

How does global land-use change reshape ecological assemblages over time?
Role: Principal investigatorPurvis A
Funding: NERC
Total value £583,881.63 (to Museum £583,881.63)
Dates: 2015 - 2018

Global modelling of local biodiversity responses to human impacts
Role: Principal investigatorPurv 6000 is A
Funding: NERC
Total value £614,229 (to Museum £387,486)
Dates: 2013 - 2015

Publications

Echeverría-londoño S, Newbold T, Hudson LN, Contu S, Hill SLL, Lysenko I, Arbeláez-cortés E, Armbrecht I, Boekhout T, Cabra-garcía J, Dominguez-haydar Y, Nates-parra G, Gutiérrez-lamus DL, Higuera D, Isaacs-cubides PJ, López-quintero CA, Martinez E, Miranda-esquivel DR, Navarro-iriarte LE, Noriega JA, Otavo SE, Parra-h A, Poveda K, Ramirez-pinilla MP, Rey-velasco JC, Rosselli L, Smith-pardo AH, Urbina-cardona JN, Purvis A (2016) Modelling and projecting the response of local assemblage composition to land use change across Colombia. Diversity and Distributions, 22 (11) : 1099 - 1111. doi: 10.1111/ddi.12478

Newbold T, Hudson LN, Arnell AP, Contu S, De PalmaA, Ferrier S, Hill SLL, Hoskins AJ, Lysenko I, Phillips HRP, Burton VJ, Chng CWT, Emerson S, Gao D, Pask-hale G, Hutton J, Jung M, Sanchez-ortiz K, Simmons BI, Whitmee S, Zhang H, Scharlemann JPW, Purvis A (2016) Has land use pushed terrestrial biodiversity beyond the planetary boundary? A global assessment. Science, 353 (6296) : 288 - 291. doi: 10.1126/science.aaf2201

Newbold T, Hudson LN, Arnell AP, De PalmaA, Ferrier S, Hill SLL, Hoskins AJ, Lysenko I, Phillips HRP, Burton VJ, Chng WT, Emerson S, Gao D, Pask-hale G, Hutton J, Jung M, Sanchez-ortiz K, Simmons BI, Whitmee S, Zhang H, Scharlemann JPW, Purvis A (2016) Site-level data and Jaccard similarities from Newbold et al. (2016) "Has land use pushed terrestrial biodiversity beyond the planetary boundary? A global assessment", Science 353, 281-291, DOI: 10.1126/science.aaf2201.

Newbold T, Hudson LN, Arnell AP, Contu S, De PalmaA, Ferrier S, Hill SLL, Hoskins AJ, Lysenko I, Phillips HRP, Burton VJ, Chng CWT, Emerson S, Gao D, Pask-hale G, Hutton J, Jung M, Sanchez-ortiz K, Simmons BI, Whitmee S, Zhang H, Scharlemann JPW, Purvis A (2016) Global map of the Biodiversity Intactness Index, from Newbold et al. (2016) Science.

Hudson L (2016) Inselect website .

Hoskins AJ, Bush A, Gilmore J, Harwood T, Hudson LN, Ware C, Williams KJ, Ferrier S (2016) Downscaling land-use data to provide global 30″ estimates of five land-use classes. Ecology and Evolution, 6 (9) : 3040 - 3055. doi: 10.1002/ece3.2104

Newbold T, Hudson LN, Hill SLL, Contu S, Gray CL, Scharlemann JPW, Börger L, Phillips HRP, Sheil D, Lysenko I, Purvis A (2016) Global patterns of terrestrial assemblage turnover within and among land uses. Ecography, n/a - n/a. doi: 10.1111/ecog.01932

Hudson LN, Blagoderov V, Heaton A, Holtzhausen P, Livermore L, Price BW, Van derWaltS, Smith VS (2015) Inselect: Automating the Digitization of Natural History Collections. PLOS ONE, 10 (11) : e0143402 - e0143402. doi: 10.1371/journal.pone.0143402

Gray C, Figueroa DH, Hudson LN, Ma A, Perkins D, Woodward G (2015) Joining the dots: An automated method for constructing food webs from compendia of published interactions. Food Webs, doi: 10.1016/j.fooweb.2015.09.001

De PalmaA, Kuhlmann M, Roberts SPM, Potts SG, Börger L, Hudson LN, Lysenko I, Newbold T, Purvis A (2015) Ecological traits affect the sensitivity of bees to land-use pressures in European agricultural landscapes. Journal of Applied Ecology, 52 (6) : 1567 - 1577. doi: 10.1111/1365-2664.12524

Hudson L (2015) Inselect - Automating the digitisation of natural history collections.

Hudson L, Blagodarov V, Huertas B, Livermore L, Martin G, Price B, Nhm volunteers (2015) Images for the evaluation of automatic image segmentation algorithms.

Newbold T, Hudson LN, Hill SLL, Contu S, Lysenko I, Senior RA, Börger L, Bennett DJ, Choimes A, Collen B, Day J, De PalmaA, Díaz S, Echeverria-londoño S, Edgar MJ, Feldman A, Garon M, Harrison MLK, Alhusseini T, Ingram DJ, Itescu Y, Kattge J, Kemp V, Kirkpatrick L, Kleyer M, Correia DLP, Martin CD, Meiri S, Novosolov M, Pan Y, Phillips HRP, Purves DW, Robinson A, Simpson J, Tuck SL, Weiher E, White HJ, Ewers RM, Mace GM, Scharlemann JPW, Purvis A (2015) Global effects of land use on local terrestrial biodiversity. Nature, 520 (7545) : 45 - 50. doi: 10.1038/nature14324

Hudson L, Newbold T, Contu S, Hill SLL, Lysenko I, De PalmaA, Phillips HRP, Senior RA, Bennett DJ, Booth H, Choimes A, Correia DLP, Day J, Echeverría-londoño S, Garon M, Harrison MLK, Ingram DJ, Jung M, Kemp V, Kirkpatrick, L, Martin CD, Pan Y, 220 co-authors, Purvis A (2015) PREDICTS: site-level summary biodiversity and pressure data.

Hudson LN, Newbold T, Contu S, Hill SLL, Lysenko I, De PalmaA, Phillips HRP, Senior RA, Bennett DJ, Booth H, Choimes A, Correia DLP, Day J, Echeverría-londoño S, Garon M, Harrison MLK, Ingram DJ, Jung M, Kemp V, Kirkpatrick L, Martin CD, Pan Y, White HJ, Aben J, Abrahamczyk S, Adum GB, Aguilar-barquero V, Aizen MA, Ancrenaz M, Arbeláez-cortés E, Armbrecht I, Azhar B, Azpiroz AB, Baeten L, Báldi A, Banks JE, Barlow J, Batáry P, Bates AJ, Bayne EM, Beja P, Berg Å, Berry NJ, Bicknell JE, Bihn JH, Böhning-gaese K, Boekhout T, Boutin C, Bouyer J, Brearley FQ, Brito I, Brunet J, Buczkowski G, Buscardo E, Cabra-garcía J, Calviño-cancela M, Cameron SA, Cancello EM, Carrijo TF, Carvalho AL, Castro H, Castro-luna AA, Cerda R, Cerezo A, Chauvat M, Clarke FM, Cleary DFR, Connop SP, D'aniello B, Da SilvaPG, Darvill B, Dauber J, Dejean A, Diekötter T, Dominguez-haydar Y, Dormann CF, Dumont B, Dures SG, Dynesius M, Edenius L, Elek Z, Entling MH, Farwig N, Fayle TM, Felicioli A, Felton AM, Ficetola GF, Filgueiras BKC, Fonte SJ, Fraser LH, Fukuda D, Furlani D, Ganzhorn JU, Garden JG, Gheler-costa C, Giordani P, Giordano S, Gottschalk MS, Goulson D, Gove AD, Grogan J, Hanley ME, Hanson T, Hashim NR, Hawes JE, Hébert C, Helden AJ, Henden J-A, Hernández L, Herzog F, Higuera-diaz D, Hilje B, Horgan FG, Horváth R, Hylander K, Isaacs-cubides P, Ishitani M, Jacobs CT, Jaramillo VJ, Jauker B, Jonsell M, Jung TS, Kapoor V, Kati V, Katovai E, Kessler M, Knop E, Kolb A, Kőrösi Á, Lachat T, Lantschner V, Le FéonV, Lebuhn G, Légaré J-P, Letcher SG, Littlewood NA, López-quintero CA, Louhaichi M, Lövei GL, Lucas-borja ME, Luja VH, Maeto K, Magura T, Mallari NA, Marin-spiotta E, Marshall EJP, Martínez E, Mayfield MM, Mikusinski G, Milder JC, Miller JR, Morales CL, Muchane MN, Muchane M, Naidoo R, Nakamura A, Naoe S, Nates-parra G, Navarrete GutierrezDA, Neuschulz EL, Noreika N, Norfolk O, Noriega JA, Nöske NM, O'dea N, Oduro W, Ofori-boateng C, Oke CO, Osgathorpe LM, Paritsis J, Parra-h A, Pelegrin N, Peres CA, Persson AS, Petanidou T, Phalan B, Philips TK, Poveda K, Power EF, Presley SJ, Proença V, Quaranta M, Quintero C, Redpath-downing NA, Reid JL, Reis YT, Ribeiro DB, Richardson BA, Richardson MJ, Robles CA, Römbke J, Romero-duque LP, Rosselli L, Rossiter SJ, Roulston TH, Rousseau L, Sadler JP, Sáfián S, Saldaña-vázquez RA, Samnegård U, Schüepp C, Schweiger O, Sedlock JL, Shahabuddin G, Sheil D, Silva FAB, Slade EM, Smith-pardo AH, Sodhi NS, Somarriba EJ, Sosa RA, Stout JC, Struebig MJ, Sung Y-H, Threlfall CG, Tonietto R, Tóthmérész B, Tscharntke T, Turner EC, Tylianakis JM, Vanbergen AJ, Vassilev K, Verboven HAF, Vergara CH, Vergara PM, Verhulst J, Walker TR, Wang Y, Watling JI, Wells K, Williams CD, Willig MR, Woinarski JCZ, Wolf JHD, Woodcock BA, Yu DW, Zaitsev AS, Collen B, Ewers RM, Mace GM, Purves DW, Scharlemann JPW, Purvis A (2014) The PREDICTS database: a global database of how local terrestrial biodiversity responds to human impacts. Ecology and Evolution, 4 (24) : 4701 - 4735. doi: 10.1002/ece3.1303

Newbold T, Hudson LN, Phillips HRP, Hill SLL, Contu S, Lysenko I, Blandon A, Butchart SHM, Booth HL, Day J, De PalmaA, Harrison MLK, Kirkpatrick L, Pynegar E, Robinson A, Simpson J, Mace GM, Scharlemann JPW, Purvis A (2014) A global model of the response of tropical and sub-tropical forest biodiversity to anthropogenic pressures. Proceedings of the Royal Society B: Biological Sciences, 281 (1792) : 20141371 - 20141371. doi: 10.1098/rspb.2014.1371

Tuck SL, Phillips HRP, Hintzen RE, Scharlemann JPW, Purvis A, Hudson LN (2014) MODISTools - downloading and processing MODIS remotely sensed data in R. Ecology and Evolution, n/a - n/a. doi: 10.1002/ece3.1273

Hudson L, Livermore L, Blagoderov V (null) Developing Edge Detection Technology for Natural History Images. 1 - 6.

Hudson LN, Asher C, Contu S, Newbold T, Hill SLL, Purvis A (2013) PREDICTS .

Hudson LN, Emerson R, Jenkins GB, Layer K, Ledger ME, Pichler DE, Thompson MSA, O'gorman EJ, Woodward G, Reuman DC (2013) Cheddar: analysis and visualisation of ecological communities in R. Methods in Ecology and Evolution, 4 (1) : 99 - 104. doi: 10.1111/2041-210X.12005

Hudson LN, Isaac NJB, Reuman DC (2013) The relationship between body mass and field metabolic rate among individual birds and mammals. Journal of Animal Ecology, 82 (5) : 1009 - 1020. doi: 10.1111/1365-2656.12086

Hudson LN, Newbold T, Purves DW, Scharlemann JPW, Mace G, Purvis A (2013) Projecting Responses of Ecological Diversity In Changing Terrestrial Systems (PREDICTS): Can you help?. BES Bulletin, 44 : 36 - 37.

Hudson LN, Reuman DC (2013) A cure for the plague of parameters: constraining models of complex population dynamics with allometries. Proceedings of the Royal Society B: Biological Sciences, 280 (1770) : 20131901 - 20131901. doi: 10.1098/rspb.2013.1901

Ledger ME, Milner AM, Brown LE, Edwards FK, Hudson LN, Woodward G (2013) Extreme Climatic Events Alter Aquatic Food Webs. A Synthesis of Evidence from a Mesocosm Drought Experiment. Advances In Ecological Research, 48 : 343 - 395. doi: 10.1016/B978-0-12-417199-2.00006-9

Hudson L (2012) Unifying food web structure and dynamics. PhD Thesis. (Supervisor(s)) Reuman DC.

Newbold T, Hudson LN, Purves DW, Scharlemann JPW, Mace G, Purvis A (2012) PREDICTS: Projecting Responses of Ecological Diversity in Changing Terrestrial Systems. Frontiers of Biogeography, 4 : 155 - 156.

O'gorman EJ, Pichler DE, Adams G, Benstead JP, Cohen H, Craig N, Cross WF, Demars BOL, Friberg N, Gislason GM, Gudmundsdottir R, Hawczak A, Hood JM, Hudson LN, Johansson L, Johansson MP, Junker JR, Laurila A, Manson JR, Mavromati E, Nelson D, Olafsson JS, Perkins DM, Petchey OL, Plebani M, Reuman DC, Rall BC, Stewart R, Thompson MSA, Woodward G (2012) Impacts of Warming on the Structure and Functioning of Aquatic Communities: Individual-to Ecosystem-Level Responses, In: Advances in Ecological Research, Vol 47: Global Change in Multispecies Systems, Pt 2, Woodward G, Jacob U, Ogorman EJ (Eds). null : 81 - 176.

Woodward G, Brown LE, Edwards FK, Hudson LN, Milner AM, Reuman DC, Ledger ME (2012) Climate change impacts in multispecies systems: drought alters food web size structure in a field experiment. Philosophical Transactions of the Royal Society B: Biological Sciences, 367 (1605) : 2990 - 2997. doi: 10.1098/rstb.2012.0245

Contributed Publications

Newbold T, Hudson LN, Arnell AP, De PalmaA, Ferrier S, Hill SLL, Hoskins AJ, Lysenko I, Phillips HRP, Burton VJ, Chng WT, Emerson S, Gao D, Pask-hale G, Hutton J, Jung M, Sanchez-ortiz K, Simmons BI, Whitmee S, Zhang H, Scharlemann JPW, Purvis A (2016) Site-level data and Jaccard similarities from Newbold et al. (2016) "Has land use pushed terrestrial biodiversity beyond the planetary boundary? A global assessment", Science 353, 281-291, DOI: 10.1126/science.aaf2201.

Newbold T, Hudson LN, Arnell AP, Contu S, De PalmaA, Ferrier S, Hill SLL, Hoskins AJ, Lysenko I, Phillips HRP, Burton VJ, Chng CWT, Emerson S, Gao D, Pask-hale G, Hutton J, Jung M, Sanchez-ortiz K, Simmons BI, Whitmee S, Zhang H, Scharlemann JPW, Purvis A (2016) Global map of the Biodiversity Intactness Index, from Newbold et al. (2016) Science.

Hudson L (2016) Inselect website .

Hudson L, Blagodarov V, Huertas B, Livermore L, Martin G, Price B, Nhm volunteers (2015) Images for the evaluation of automatic image segmentation algorithms.

Hudson L, Newbold T, Contu S, Hill SLL, Lysenko I, De PalmaA, Phillips HRP, Senior RA, Bennett DJ, Booth H, Choimes A, Correia DLP, Day J, Echeverría-londoño S, Garon M, Harrison MLK, Ingram DJ, Jung M, Kemp V, Kirkpatrick, L, Martin CD, Pan Y, 220 co-authors, Purvis A (2015) PREDICTS: site-level summary biodiversity and pressure data.

Invited and keynote speaker

Invited speaker, Inselect, 24/10/2016.

Invited speaker, Inselect, informatics, and collections digitization at the Natural History Museum, London, 4/10/2016.

Invited speaker, Inselect, informatics, and collections digitization at the Natural History Museum, London, National Museum of Natural History (SI), Washington D.C., United States, 27/9/2016.

Invited speaker, Inselect - applying computer vision to facilitate rapid record creation and metadata capture, Entomological Collections Network 2016 annual meeting: Orlando, United States, 24/9/2016.

Invited speaker, Inselect, selected tools for automated metadata capture from specimen images: 25/6/2016.

eMesozoic: an alternative approach to digitising palaeontological collections, SPNHC 2016: 22/6/2016.

Invited speaker, Insights into Inselect: automating image processing, barcode reading, and validation of user-defined metadata, 29/3/2016.

Invited speaker, “The bigger they are, the harder they fall?” Organism size & species sensitivity to land-use impacts, European Ecological Federation Congress 2015: Symposium "The (macro)ecology of species decline: 21/9/2015.

Inselect: an innovative tool for automating digitisation of natural history collections, SPNHC Conference 2015 - Specimens Full Circle: Collection to Digitization to Data Use: 21/5/2015.

Invited speaker, The PREDICTS Project, NHM Executive Board visit: 2/2/2015.

Invited speaker, The global response of terrestrial protected area biodiversity to human impacts, World Parks Congress 2015: Olympic Stadium, Sydney, Australia, 15/11/2014.

Applied Edge Detection in Zoological Collections: Inselect Prototype, SYNTHESYS3 AGM - JRA Highlights: 7/9/2014.

Invited speaker, PREDICTS: Projecting Responses of Ecological Diversity In Changing Terrestrial Systems, Departmental Seminar: Department of Life Sciences, Natural History Museum, London, 9/10/2013.

Introduction

Summary

I work in the museum's informatics group on a number of projects related to the digitisation of collections. I work with other scientists and with curators to achieve the museum's goal of digitising 20 million of our 80 million specimens by 2020. I develop processes and software to make possible the high-throughput digital imaging that this target requires, such as the automated segmentation of scanned images of multiple specimens, reading barcodes within images and annotation of metadata. The Inselect software package is a major output of my work. I also work on PREDICTS (Projecting Responses of Ecological Diversity In Changing Terrestrial Systems) - a collaborative project that is investigating how biodiversity in terrestrial communities responds to human pressures. We model biodiversity responses at a global scale using data collected at local levels. My main job in the team is to produce software to handle all aspects of the project's data including collation, validation, curation, visualisation and extraction. The project has collated more 3 million biodiversity measurements. During my PhD I investigated the relationship between dynamics and structure of multi-trophic ecological communities, in particular the modelling approach proposed by Yodzis & Innes, 1992. Mathematical models of the dynamics of systems of realistic complexity have a large number of unmeasured parameters, and whole-community data are limited and typically comprise only a snapshot or time-averaged picture. Yodzis & Innes proposed a dynamical model that is parameterised using physiological allometries - empirically-observed inter-specic power-law relationships between physiological rates and body masses. I examined this modelling approach and some of its assumptions. Outcomes of this work are 1) publication of a new dataset of field metabolic rate data of individual birds and mammals together with an analysis of these data using linear mixed-effects models, leading to a better understanding of one of the model's principal assumptions, 2) an open-source R package for analysing and visualising empirical food-web data, 3) an open-source R package for simulating community dynamics using the model of interest and 4) validation of the model's ability to recreate static patterns seen in empirical community data. I love working with open-source software, particularly Python, Linux, PostgreSQL, PostGIS, R, Qt and OpenCV.

Qualifications

Degrees

PhD Computational Ecology, Imperial College London, United Kingdom, 2009 - 2012

MSc Ecology, Evolution and Conservation, Imperial College London, United Kingdom, 2008 - 2009

Employment history

Academic

Developer - open data and innovation, Natural History Museum, Informatics, United Kingdom, 2016 - ongoing

Digitisation System Engineer, Natural History Museum, Informatics, United Kingdom, 2014 - 2015

Post-doctoral Research Associate, PREDICTS project, Natural History Museum, United Kingdom, 2013 - 2015

Post-doctoral Research Associate, PREDICTS project, Imperial College London, United Kingdom, 2012 - 2013

Highlighted publications

Newbold T, Hudson LN, Arnell AP, Contu S, De PalmaA, et al. (2016) Has land use pushed terrestrial biodiversity beyond the planetary boundary? A global assessment. Science, 353 (6296) : 288 - 291. doi: 10.1126/science.aaf2201

Hudson LN, Blagoderov V, Heaton A, Holtzhausen P, Livermore L, et al. (2015) Inselect: Automating the Digitization of Natural History Collections. PLOS ONE, 10 (11) : e0143402 - e0143402. doi: 10.1371/journal.pone.0143402

Hudson LN, Newbold T, Contu S, Hill SLL, Lysenko I, et al. (2014) The PREDICTS database: a global database of how local terrestrial biodiversity responds to human impacts. Ecology and Evolution, 4 (24) : 4701 - 4735. doi: 10.1002/ece3.1303

Projects

Grants

How does global land-use change reshape ecological assemblages over time?
Role: Principal investigatorPurvis A
Funding: NERC
Total value £583,881.63 (to Museum £583,881.63)
Dates: 2015 - 2018

Global modelling of local biodiversity responses to human impacts
Role: Principal investigatorPurvis A
Funding: NERC
Total value £614,229 (to Museum £387,486)
Dates: 2013 - 2015

Publications

Publications

Echeverría-londoño S, Newbold T, Hudson LN, Contu S, Hill SLL, Lysenko I, Arbeláez-cortés E, Armbrecht I, Boekhout T, Cabra-garcía J, Dominguez-haydar Y, Nates-parra G, Gutiérrez-lamus DL, Higuera D, Isaacs-cubides PJ, López-quintero CA, Martinez E, Miranda-esquivel DR, Navarro-iriarte LE, Noriega JA, Otavo SE, Parra-h A, Poveda K, Ramirez-pinilla MP, Rey-velasco JC, Rosselli L, Smith-pardo AH, Urbina-cardona JN, Purvis A (2016) Modelling and projecting the response of local assemblage composition to land use change across Colombia. Diversity and Distributions, 22 (11) : 1099 - 1111. doi: 10.1111/ddi.12478

Newbold T, Hudson LN, Arnell AP, Contu S, De PalmaA, Ferrier S, Hill SLL, Hoskins AJ, Lysenko I, Phillips HRP, Burton VJ, Chng CWT, Emerson S, Gao D, Pask-hale G, Hutton J, Jung M, Sanchez-ortiz K, Simmons BI, Whitmee S, Zhang H, Scharlemann JPW, Purvis A (2016) Has land use pushed terrestrial biodiversity beyond the planetary boundary? A global assessment. Science, 353 (6296) : 288 - 291. doi: 10.1126/science.aaf2201

Newbold T, Hudson LN, Arnell AP, De PalmaA, Ferrier S, Hill SLL, Hoskins AJ, Lysenko I, Phillips HRP, Burton VJ, Chng WT, Emerson S, Gao D, Pask-hale G, Hutton J, Jung M, Sanchez-ortiz K, Simmons BI, Whitmee S, Zhang H, Scharlemann JPW, Purvis A (2016) Site-level data and Jaccard similarities from Newbold et al. (2016) "Has land use pushed terrestrial biodiversity beyond the planetary boundary? A global assessment", Science 353, 281-291, DOI: 10.1126/science.aaf2201.

Newbold T, Hudson LN, Arnell AP, Contu S, De PalmaA, Ferrier S, Hill SLL, Hoskins AJ, Lysenko I, Phillips HRP, Burton VJ, Chng CWT, Emerson S, Gao D, Pask-hale G, Hutton J, Jung M, Sanchez-ortiz K, Simmons BI, Whitmee S, Zhang H, Scharlemann JPW, Purvis A (2016) Global map of the Biodiversity Intactness Index, from Newbold et al. (2016) Science.

Hudson L (2016) Inselect website .

Hoskins AJ, Bush A, Gilmore J, Harwood T, Hudson LN, Ware C, Williams KJ, Ferrier S (2016) Downscaling land-use data to provide global 30″ estimates of five land-use classes. Ecology and Evolution, 6 (9) : 3040 - 3055. doi: 10.1002/ece3.2104

Newbold T, Hudson LN, Hill SLL, Contu S, Gray CL, Scharlemann JPW, Börger L, Phillips HRP, Sheil D, Lysenko I, Purvis A (2016) Global patterns of terrestrial assemblage turnover within and among land uses. Ecography, n/a - n/a. doi: 10.1111/ecog.01932

Hudson LN, Blagoderov V, Heaton A, Holtzhausen P, Livermore L, Price BW, Van derWaltS, Smith VS (2015) Inselect: Automating the Digitization of Natural History Collections. PLOS ONE, 10 (11) : e0143402 - e0143402. doi: 10.1371/journal.pone.0143402

Gray C, Figueroa DH, Hudson LN, Ma A, Perkins D, Woodward G (2015) Joining the dots: An automated method for constructing food webs from compendia of published interactions. Food Webs, doi: 10.1016/j.fooweb.2015.09.001

De PalmaA, Kuhlmann M, Roberts SPM, Potts SG, Börger L, Hudson LN, Lysenko I, Newbold T, Purvis A (2015) Ecological traits affect the sensitivity of bees to land-use pressures in European agricultural landscapes. Journal of Applied Ecology, 52 (6) : 1567 - 1577. doi: 10.1111/1365-2664.12524

Hudson L (2015) Inselect - Automating the digitisation of natural history collections.

Hudson L, Blagodarov V, Huertas B, Livermore L, Martin G, Price B, Nhm volunteers (2015) Images for the evaluation of automatic image segmentation algorithms.

Newbold T, Hudson LN, Hill SLL, Contu S, Lysenko I, Senior RA, Börger L, Bennett DJ, Choimes A, Collen B, Day J, De PalmaA, Díaz S, Echeverria-londoño S, Edgar MJ, Feldman A, Garon M, Harrison MLK, Alhusseini T, Ingram DJ, Itescu Y, Kattge J, Kemp V, Kirkpatrick L, Kleyer M, Correia DLP, Martin CD, Meiri S, Novosolov M, Pan Y, Phillips HRP, Purves DW, Robinson A, Simpson J, Tuck SL, Weiher E, White HJ, Ewers RM, Mace GM, Scharlemann JPW, Purvis A (2015) Global effects of land use on local terrestrial biodiversity. Nature, 520 (7545) : 45 - 50. doi: 10.1038/nature14324

Hudson L, Newbold T, Contu S, Hill SLL, Lysenko I, De PalmaA, Phillips HRP, Senior RA, Bennett DJ, Booth H, Choimes A, Correia DLP, Day J, Echeverría-londoño S, Garon M, Harrison MLK, Ingram DJ, Jung M, Kemp V, Kirkpatrick, L, Martin CD, Pan Y, 220 co-authors, Purvis A (2015) PREDICTS: site-level summary biodiversity and pressure data.

Hudson LN, Newbold T, Contu S, Hill SLL, Lysenko I, De PalmaA, Phillips HRP, Senior RA, Bennett DJ, Booth H, Choimes A, Correia DLP, Day J, Echeverría-londoño S, Garon M, Harrison MLK, Ingram DJ, Jung M, Kemp V, Kirkpatrick L, Martin CD, Pan Y, White HJ, Aben J, Abrahamczyk S, Adum GB, Aguilar-barquero V, Aizen MA, Ancrenaz M, Arbeláez-cortés E, Armbrecht I, Azhar B, Azpiroz AB, Baeten L, Báldi A, Banks JE, Barlow J, Batáry P, Bates AJ, Bayne EM, Beja P, Berg Å, Berry NJ, Bicknell JE, Bihn JH, Böhning-gaese K, Boekhout T, Boutin C, Bouyer J, Brearley FQ, Brito I, Brunet J, Buczkowski G, Buscardo E, Cabra-garcía J, Calviño-cancela M, Cameron SA, Cancello EM, Carrijo TF, Carvalho AL, Castro H, Castro-luna AA, Cerda R, Cerezo A, Chauvat M, Clarke FM, Cleary DFR, Connop SP, D'aniello B, Da SilvaPG, Darvill B, Dauber J, Dejean A, Diekötter T, Dominguez-haydar Y, Dormann CF, Dumont B, Dures SG, Dynesius M, Edenius L, Elek Z, Entling MH, Farwig N, Fayle TM, Felicioli A, Felton AM, Ficetola GF, Filgueiras BKC, Fonte SJ, Fraser LH, Fukuda D, Furlani D, Ganzhorn JU, Garden JG, Gheler-costa C, Giordani P, Giordano S, Gottschalk MS, Goulson D, Gove AD, Grogan J, Hanley ME, Hanson T, Hashim NR, Hawes JE, Hébert C, Helden AJ, Henden J-A, Hernández L, Herzog F, Higuera-diaz D, Hilje B, Horgan FG, Horváth R, Hylander K, Isaacs-cubides P, Ishitani M, Jacobs CT, Jaramillo VJ, Jauker B, Jonsell M, Jung TS, Kapoor V, Kati V, Katovai E, Kessler M, Knop E, Kolb A, Kőrösi Á, Lachat T, Lantschner V, Le FéonV, Lebuhn G, Légaré J-P, Letcher SG, Littlewood NA, López-quintero CA, Louhaichi M, Lövei GL, Lucas-borja ME, Luja VH, Maeto K, Magura T, Mallari NA, Marin-spiotta E, Marshall EJP, Martínez E, Mayfield MM, Mikusinski G, Milder JC, Miller JR, Morales CL, Muchane MN, Muchane M, Naidoo R, Nakamura A, Naoe S, Nates-parra G, Navarrete GutierrezDA, Neuschulz EL, Noreika N, Norfolk O, Noriega JA, Nöske NM, O'dea N, Oduro W, Ofori-boateng C, Oke CO, Osgathorpe LM, Paritsis J, Parra-h A, Pelegrin N, Peres CA, Persson AS, Petanidou T, Phalan B, Philips TK, Poveda K, Power EF, Presley SJ, Proença V, Quaranta M, Quintero C, Redpath-downing NA, Reid JL, Reis YT, Ribeiro DB, Richardson BA, Richardson MJ, Robles CA, Römbke J, Romero-duque LP, Rosselli L, Rossiter SJ, Roulston TH, Rousseau L, Sadler JP, Sáfián S, Saldaña-vázquez RA, Samnegård U, Schüepp C, Schweiger O, Sedlock JL, Shahabuddin G, Sheil D, Silva FAB, Slade EM, Smith-pardo AH, Sodhi NS, Somarriba EJ, Sosa RA, Stout JC, Struebig MJ, Sung Y-H, Threlfall CG, Tonietto R, Tóthmérész B, Tscharntke T, Turner EC, Tylianakis JM, Vanbergen AJ, Vassilev K, Verboven HAF, Vergara CH, Vergara PM, Verhulst J, Walker TR, Wang Y, Watling JI, Wells K, Williams CD, Willig MR, Woinarski JCZ, Wolf JHD, Woodcock BA, Yu DW, Zaitsev AS, Collen B, Ewers RM, Mace GM, Purves DW, Scharlemann JPW, Purvis A (2014) The PREDICTS database: a global database of how local terrestrial biodiversity responds to human impacts. Ecology and Evolution, 4 (24) : 4701 - 4735. doi: 10.1002/ece3.1303

Newbold T, Hudson LN, Phillips HRP, Hill SLL, Contu S, Lysenko I, Blandon A, Butchart SHM, Booth HL, Day J, De PalmaA, Harrison MLK, Kirkpatrick L, Pynegar E, Robinson A, Simpson J, Mace GM, Scharlemann JPW, Purvis A (2014) A global model of the response of tropical and sub-tropical forest biodiversity to anthropogenic pressures. Proceedings of the Royal Society B: Biological Sciences, 281 (1792) : 20141371 - 20141371. doi: 10.1098/rspb.2014.1371

Tuck SL, Phillips HRP, Hintzen RE, Scharlemann JPW, Purvis A, Hudson LN (2014) MODISTools - downloading and processing MODIS remotely sensed data in R. Ecology and Evolution, n/a - n/a. doi: 10.1002/ece3.1273

Hudson L, Livermore L, Blagoderov V (null) Developing Edge Detection Technology for Natural History Images. 1 - 6.

Hudson LN, Asher C, Contu S, Newbold T, Hill SLL, Purvis A (2013) PREDICTS .

Hudson LN, Emerson R, Jenkins GB, Layer K, Ledger ME, Pichler DE, Thompson MSA, O'gorman EJ, Woodward G, Reuman DC (2013) Cheddar: analysis and visualisation of ecological communities in R. Methods in Ecology and Evolution, 4 (1) : 99 - 104. doi: 10.1111/2041-210X.12005

Hudson LN, Isaac NJB, Reuman DC (2013) The relationship between body mass and field metabolic rate among individual birds and mammals. Journal of Animal Ecology, 82 (5) : 1009 - 1020. doi: 10.1111/1365-2656.12086

Hudson LN, Newbold T, Purves DW, Scharlemann JPW, Mace G, Purvis A (2013) Projecting Responses of Ecological Diversity In Changing Terrestrial Systems (PREDICTS): Can you help?. BES Bulletin, 44 : 36 - 37.

Hudson LN, Reuman DC (2013) A cure for the plague of parameters: constraining models of complex population dynamics with allometries. Proceedings of the Royal Society B: Biological Sciences, 280 (1770) : 20131901 - 20131901. doi: 10.1098/rspb.2013.1901

Ledger ME, Milner AM, Brown LE, Edwards FK, Hudson LN, Woodward G (2013) Extreme Climatic Events Alter Aquatic Food Webs. A Synthesis of Evidence from a Mesocosm Drought Experiment. Advances In Ecological Research, 48 : 343 - 395. doi: 10.1016/B978-0-12-417199-2.00006-9

Hudson L (2012) Unifying food web structure and dynamics. PhD Thesis. (Supervisor(s)) Reuman DC.

Newbold T, Hudson LN, Purves DW, Scharlemann JPW, Mace G, Purvis A (2012) PREDICTS: Projecting Responses of Ecological Diversity in Changing Terrestrial Systems. Frontiers of Biogeography, 4 : 155 - 156.

O'gorman EJ, Pichler DE, Adams G, Benstead JP, Cohen H, Craig N, Cross WF, Demars BOL, Friberg N, Gislason GM, Gudmundsdottir R, Hawczak A, Hood JM, Hudson LN, Johansson L, Johansson MP, Junker JR, Laurila A, Manson JR, Mavromati E, Nelson D, Olafsson JS, Perkins DM, Petchey OL, Plebani M, Reuman DC, Rall BC, Stewart R, Thompson MSA, Woodward G (2012) Impacts of Warming on the Structure and Functioning of Aquatic Communities: Individual-to Ecosystem-Level Responses, In: Advances in Ecological Research, Vol 47: Global Change in Multispecies Systems, Pt 2, Woodward G, Jacob U, Ogorman EJ (Eds). null : 81 - 176.

Woodward G, Brown LE, Edwards FK, Hudson LN, Milner AM, Reuman DC, Ledger ME (2012) Climate change impacts in multispecies systems: drought alters food web size structure in a field experiment. Philosophical Transactions of the Royal Society B: Biological Sciences, 367 (1605) : 2990 - 2997. doi: 10.1098/rstb.2012.0245

Contributed Publications

Newbold T, Hudson LN, Arnell AP, De PalmaA, Ferrier S, Hill SLL, Hoskins AJ, Lysenko I, Phillips HRP, Burton VJ, Chng WT, Emerson S, Gao D, Pask-hale G, Hutton J, Jung M, Sanchez-ortiz K, Simmons BI, Whitmee S, Zhang H, Scharlemann JPW, Purvis A (2016) Site-level data and Jaccard similarities from Newbold et al. (2016) "Has land use pushed terrestrial biodiversity beyond the planetary boundary? A global assessment", Science 353, 281-291, DOI: 10.1126/science.aaf2201.

Newbold T, Hudson LN, Arnell AP, Contu S, De PalmaA, Ferrier S, Hill SLL, Hoskins AJ, Lysenko I, Phillips HRP, Burton VJ, Chng CWT, Emerson S, Gao D, Pask-hale G, Hutton J, Jung M, Sanchez-ortiz K, Simmons BI, Whitmee S, Zhang H, Scharlemann JPW, Purvis A (2016) Global map of the Biodiversity Intactness Index, from Newbold et al. (2016) Science.

Hudson L (2016) Inselect website .

Hudson L, Blagodarov V, Huertas B, Livermore L, Martin G, Price B, Nhm volunteers (2015) Images for the evaluation of automatic image segmentation algorithms.

Hudson L, Newbold T, Contu S, Hill SLL, Lysenko I, De PalmaA, Phillips HRP, Senior RA, Bennett DJ, Booth H, Choimes A, Correia DLP, Day J, Echeverría-londoño S, Garon M, Harrison MLK, Ingram DJ, Jung M, Kemp V, Kirkpatrick, L, Martin CD, Pan Y, 220 co-authors, Purvis A (2015) PREDICTS: site-level summary biodiversity and pressure data.

Impact and outreach

Invited and keynote speaker

Invited speaker, Inselect, 24/10/2016.

Invited speaker, Inselect, informatics, and collections digitization at the Natural History Museum, London, 4/10/2016.

Invited speaker, Inselect, informatics, and collections digitization at the Natural History Museum, London, National Museum of Natural History (SI), Washington D.C., United States, 27/9/2016.

Invited speaker, Inselect - applying computer vision to facilitate rapid record creation and metadata capture, Entomological Collections Network 2016 annual meeting: Orlando, United States, 24/9/2016.

Invited speaker, Inselect, selected tools for automated metadata capture from specimen images: 25/6/2016.

eMesozoic: an alternative approach to digitising palaeontological collections, SPNHC 2016: 22/6/2016.

Invited speaker, Insights into Inselect: automating image processing, barcode reading, and validation of user-defined metadata, 29/3/2016.

Invited speaker, “The bigger they are, the harder they fall?” Organism size & species sensitivity to land-use impacts, European Ecological Federation Congress 2015: Symposium "The (macro)ecology of species decline: 21/9/2015.

Inselect: an innovative tool for automating digitisation of natural history collections, SPNHC Conference 2015 - Specimens Full Circle: Collection to Digitization to Data Use: 21/5/2015.

Invited speaker, The PREDICTS Project, NHM Executive Board visit: 2/2/2015.

Invited speaker, The global response of terrestrial protected area biodiversity to human impacts, World Parks Congress 2015: Olympic Stadium, Sydney, Australia, 15/11/2014.

Applied Edge Detection in Zoological Collections: Inselect Prototype, SYNTHESYS3 AGM - JRA Highlights: 7/9/2014.

Invited speaker, PREDICTS: Projecting Responses of Ecological Diversity In Changing Terrestrial Systems, Departmental Seminar: Department of Life Sciences, Natural History Museum, London, 9/10/2013.

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