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Tony Rees

  • Undergraduate studies: University of Leeds, UK, 1971-1974 (Department of Botany) Postgraduate studies: University of ... moreedit
  • Prof. Gordon F. Leedale, University of Leedsedit
We give estimated counts of known accepted genera of the world (301,108* ±62,998*, of which approximately 22% are fossil), and unaccepted genera (synonyms sensu lato: 190,741* ±62,998*), for “all life” based on the March 2020 release of... more
We give estimated counts of known accepted genera of the world (301,108* ±62,998*, of which approximately 22% are fossil), and unaccepted genera (synonyms sensu lato: 190,741* ±62,998*), for “all life” based on the March 2020 release of the Interim Register of Marine and Nonmarine Genera (IRMNG); a further approx. 9,400* accepted genus names are anticipated to have been published over the period 2014–2019 that are not yet included in IRMNG. A breakdown of the data is presented by phylum and, in some cases, lower taxonomic group such as class or order; the actual lists of names on which the totals are based are available for query via the IRMNG web site and are also included as supplementary data to this paper. These data provide the most complete and consistent coverage of all kingdoms of life presently available in such a form and, despite their “interim” nature (not completely vetted by taxonomic experts, not all genera yet placed to family), serve to illustrate the scope of a pro...
IRMNG, the Interim Register of Marine and Nonmarine Genera, was commenced in 2006 as an initiative of the Australian OBIS Node (OBIS Australia) following an analysis of the taxonomic names management needs of OBIS, the Ocean Biogeographic... more
IRMNG, the Interim Register of Marine and Nonmarine Genera, was commenced in 2006 as an initiative of the Australian OBIS Node (OBIS Australia) following an analysis of the taxonomic names management needs of OBIS, the Ocean Biogeographic Information System. The main objectives were to produce a hierarchical classification of all life, both extant and fossil, to at least genus level (and to species as data were readily available) and to provide a tool to distinguish marine from nonmarine, and extant from fossil taxa. Over its first 10 years of operation IRMNG has acquired some 487,000 of an estimated c.500,000 published genus names (including both valid names and synonyms) in addition to almost 1.8 million species names, of which 1.3 million are considered valid. Throughout this time IRMNG data have been available for public query via a dedicated web interface based at CSIRO in Australia, as well as being supplied as bulk downloads for use by a range of global biodiversity projects....
Kaschner, K., Ready, JS, Agbayani, E., Kesner-Reyes, K., Rius-Barile, J., Eastwood, PD, South, AB, Kullander, SO, Rees, T., Watson, R., Pauly, D. and Froese, Rainer (2011) Using 'Aquamaps' for representing... more
Kaschner, K., Ready, JS, Agbayani, E., Kesner-Reyes, K., Rius-Barile, J., Eastwood, PD, South, AB, Kullander, SO, Rees, T., Watson, R., Pauly, D. and Froese, Rainer (2011) Using 'Aquamaps' for representing species distribution in Regional Seas The State of Biodiversity and Fisheries in Regional Seas. Fisheries Centre Research Reports, 19 . Fisheries Centre, University of British Columbia, Vancouver, BD, Canady, pp. 17-21.
We give estimated counts of known accepted genera of the world (297,930±65,840, of which approximately 21% are fossil), of a total 492,620 genus names presently held for "all life", based on the March 2020 release of the Interim Register... more
We give estimated counts of known accepted genera of the world (297,930±65,840, of which approximately 21% are fossil), of a total 492,620 genus names presently held for "all life", based on the March 2020 release of the Interim Register of Marine and Nonmarine Genera (IRMNG). A further c. 9,400 accepted genus names are anticipated to have been published over the period 2014-2019 which are not yet included in IRMNG; together with a lower confidence estimate that perhaps an additional 3,000 historic names are also missing from the present version of IRMNG, we therefore estimate that approximately 310,000 accepted generic names have been published to the end of 2019, with the holdings of IRMNG being around 96% complete. A breakdown of the data is presented by phylum and, in some cases, lower taxo-nomic group such as class or order; the actual lists of names on which the totals are based are available for download via the IRMNG web site and are also included as supplementary data to this paper. These data provide the most complete and consistent coverage of all kingdoms of life presently available in such a form and, despite their "interim" nature (not completely vetted by taxonomic experts, not all genera yet placed to family), serve to illustrate the scope of a project for a more detailed survey of "all genera of the world" as well as providing a comparison with existing lists (for example, to indicate names that may be missed from either side), and preliminary content that can be of value for the compilation of new lists. We note areas (chiefly very recently published names) where present IRMNG data may be incomplete and briefly address other issues encountered in the assembly of such data, including those associated with the construction of a unified and/or consensus classification within which genera and their containing families can be placed.
IRMNG, the Interim Register of Marine and Nonmarine Genera, was commenced in 2006 as an initiative of the Australian OBIS Node (OBIS Australia) following an analysis of the taxonomic names management needs of the Ocean Biogeographic... more
IRMNG, the Interim Register of Marine and Nonmarine Genera, was commenced in 2006 as an initiative of the Australian OBIS Node (OBIS Australia) following an analysis of the taxonomic names management needs of the Ocean Biogeographic Information System (OBIS). The main objectives were to produce a hierarchical classification of all life, both extant and fossil, to at least generic level (and to species as data were readily available) and to provide a tool to distinguish marine from nonmarine, and extant from fossil taxa. Over its first 10 years of operation IRMNG has acquired almost 487,000 of an estimated 510,000 published genus names (including both valid names and synonyms) in addition to almost 1.8 million species names, of which 1.3 million are considered valid. Throughout this time IRMNG data have been available for public query via a dedicated web interface based at CSIRO in Australia, as well as being supplied as bulk downloads for use by a range of global biodiversity projects. Over the period 2014-2016 responsibility for the system has been passed to the Data Centre Division of the Flanders Marine Institute (VLIZ) in Belgium, which is continuing the maintenance and development of IRMNG at its new web location, www.irmng.org. With its present estimated holdings of >95% of all published genus names (plus associated authorities and years of publication) across all taxonomic domains, including fossil as well as extant taxa, within an internally consistent taxonomic hierarchy, IRMNG is at present uniquely placed to provide an overview of “all life” to at least generic level, to permit the discovery of trends in publication of genera through time, to provide preliminary information on the marine vs. nonmarine and extant vs. fossil status of the taxa concerned, and to generate lists of both unique and non-unique names (homonyms sensu lato) for the benefit of users of biodiversity data.
Phytoplankton periodicity in Sawley Dene, a shallow eutrophic lake in North Yorkshire, is described over two field seasons (1976-1978). Two main peaks of biomass occurred annually, corresponding with population maxima of the diatom... more
Phytoplankton periodicity in Sawley Dene, a shallow eutrophic lake in North Yorkshire, is described over two field seasons (1976-1978). Two main peaks of biomass occurred annually, corresponding with population maxima of the diatom Asterionella formosa Hass, in winter/ spring and planktonic Cyanophyceae (particularly Anabaena solitaria Klebs) in late summer. The periodicity of these and twenty-one other algal species is recorded, together with growth curves for species exceeding five individuals ml 1 in the 1976/7 season. Sawley Dene does not exhibit summer thermal stratification but many features of the phytoplankton succession mimic those expected in the epilimnion of a stratifying lake. It is suggested that nutrient stress prevails in this unstratified lake owing to the virtual cessation of lake inflow during the summer months. Autumn replenishment, which in a stratified system would occur with the overturn, takes place in Sawley Dene following increased precipitation on the small catchment area and the resumption of significant water inflow into the lake.
Sawley Dene, a small secluded lake in North Yorkshire, supports large populations of diatoms in spring and blue-green algae in late summer. Characteristics of the drainage area give this shallow lake calcareous water and a long retention... more
Sawley Dene, a small secluded lake in North Yorkshire, supports large populations of diatoms in spring and blue-green algae in late summer. Characteristics of the drainage area give this shallow lake calcareous water and a long retention time; although persistent summer ...
SIDALC - Sistema de Informacion y Documentacion Agropecuaria de las Americas.
... Squamae duarum formarum, alterae planae et ad instar retis areni, alterae base plana et extensione perpendiculari plano-compressa. Squamae ... crassa. Alterae squamae base squamis ad instar retis areni simili, 0-404).45 ~tm diam. ...
Misspellings of organism scientific names create barriers to optimal storage and organization of biological data, reconciliation of data stored under different spelling variants of the same name, and appropriate responses from user... more
Misspellings of organism scientific names create barriers to optimal storage and organization of biological data, reconciliation of data stored under different spelling variants of the same name, and appropriate responses from user queries to taxonomic data systems. This study presents an analysis of the nature of the problem from first principles, reviews some available algorithmic approaches, and describes Taxamatch, an improved name matching solution for this information domain. Taxamatch employs a custom Modified Damerau-Levenshtein Distance algorithm in tandem with a phonetic algorithm, together with a rule-based approach incorporating a suite of heuristic filters, to produce improved levels of recall, precision and execution time over the existing dynamic programming algorithms n-grams (as bigrams and trigrams) and standard edit distance. Although entirely phonetic methods are faster than Taxamatch, they are inferior in the area of recall since many real-world errors are non-phonetic in nature. Excellent performance of Taxamatch (as recall, precision and execution time) is demonstrated against a reference database of over 465,000 genus names and 1.6 million species names, as well as against a range of error types as present at both genus and species levels in three sets of sample data for species and four for genera alone. An ancillary authority matching component is included which can be used both for misspelled names and for otherwise matching names where the associated cited authorities are not identical.
This article has been published in Oceanography, Volume 13, Number 3, a quarterly publication of The Oceanography Society. Copyright 2000 by The Oceanography Society. All rights reserved. Reproduction of any portion of this article by... more
This article has been published in Oceanography, Volume 13, Number 3, a quarterly publication of The Oceanography Society. Copyright 2000 by The Oceanography Society. All rights reserved. Reproduction of any portion of this article by photocopy machine, ...
... The production of toxins responsible for para lytic shellfish poisoning (PSP) is known princi pally from some 20 species of armoured dino flagellates, eg Alexandrium tamarense (Lebour) Balech (previously also known as Gonyaulax... more
... The production of toxins responsible for para lytic shellfish poisoning (PSP) is known princi pally from some 20 species of armoured dino flagellates, eg Alexandrium tamarense (Lebour) Balech (previously also known as Gonyaulax tamarensis or Protogonyaulax tamarensis), A ...
Imagery collected by still and video cameras is an increasingly important tool for minimal impact, repeatable observations in the marine environment. Data generated from imagery includes identification, annotation and quantification of... more
Imagery collected by still and video cameras is an increasingly important tool for minimal impact, repeatable observations in the marine environment. Data generated from imagery includes identification, annotation and quantification of biological subjects and environmental features within an image. To be long-lived and useful beyond their project-specific initial purpose, and to maximize their utility across studies and disciplines, marine imagery data should use a standardised vocabulary of defined terms. This would enable the compilation of regional, national and/or global data sets from multiple sources, contributing to broad-scale management studies and development of automated annotation algorithms. The classification scheme developed under the Collaborative and Automated Tools for Analysis of Marine Imagery (CATAMI) project provides such a vocabulary. The CATAMI classification scheme introduces Australian-wide acknowledged, standardised terminology for annotating benthic substrates and biota in marine imagery. It combines coarse-level taxonomy and morphology, and is a flexible, hierarchical classification that bridges the gap between habitat/biotope characterisation and taxonomy, acknowledging limitations when describing biological taxa through imagery. It is fully described, documented, and maintained through curated online databases, and can be applied across benthic image collection methods, annotation platforms and scoring methods. Following release in 2013, the CATAMI classification scheme was taken up by a wide variety of users, including government, academia and industry. This rapid acceptance highlights the scheme's utility and the potential to facilitate broad-scale multidisciplinary studies of marine ecosystems when applied globally. Here we present the CATAMI classification scheme, describe its conception and features, and discuss its utility and the opportunities as well as challenges arising from its use.