Calendar for DEB milestones
| year | milestones |
|---|---|
| 2026 |
value of specific somatic maintenance convincingly coupled to seasonal dynamics of food availability: relax-hurry spectrum distribution of this parameter is a mixture of two Weibull distributions for relax and hurry species, respectively DEB's equation of life couples the metabolic machinery of the energy budget to the trophic position in the food web |
| 2025 |
over 6000 AmP entries, just before the DEB2025 event and 7000 AmP entries in mid nov; frequent revisions of entries/taxonomy; over 1300 Zotero entries in DEBlib; hunderds of entries added to AmP with respiration data, but no growth data to evaluate supply stress; aerobic scope and trophic position in the food chain coupled to supply stress and fraction of assimilation allocated to reproduction |
| 2024 |
"complete" taxa in AmP: branchiopods; distribution of parameter estimators; over 5000 AmP entries; frequent revisions of entries/taxonomy; exponential growth of number of DEB papers, from 1980 till at least 2020; writing of methodology paper by the core DEBcourse crew |
| 2023 |
creation of GitHub repository SI with supporting information for a number of papers, e.g. to illustrate the use of AmPtool; creation of simu_my_pet within AmPtool, which shows trajectories of key variables in a variable environment; over 4000 AmP entries; frequent revisions of entries/taxonomy; Revision of a large number of entries |
| 2022 |
replacement of DEBwiki on IST-server by GitHub repository DEBportal; bi-variate and tri-variate data types in AmP with multiple visualisation options; creation of GitHub repository AmPtox with various examples of AmP supported tox applications; hax-model as typified model for some insects; compaction of AmPdata to speed-up AmP performance and improved graphics presentation and browsing; pages taxa, links and ecoCodes in the "COLLECTION" dropdown with hide-column and search-species option; |
| 2021 |
over 3200 AmP entries; frequent revisions of entries/taxonomy; get_id functions for 14 websites and update of all links "complete" taxa in AmP: cephalopods, turtles/crocodiles, carnivores/pangolins; over 1000 DEB library papers on Zotero (1.5 per wk); more DEB videos on many topics with search options; distance between species based on traits, linking to multi dimensional scaling; galleryAmP with links to species_tree; hosting of AmP at IUEM (Brest) (VU, Amsterdam continues), with automatized syncing; evolutionary algorithms as alternative for the simplex method for parameter estimation by Juan Robles; DEB Shiny App and DEBsea Shiny App in R by Mike Kearney; life-time cumulated neonate mass equals mass of female at death; |
| 2020 |
"complete" taxa in AmP: N-Am freshwater fish, rays/sharks; allEco integrated in allStat, ecoCodes & links in mydata; shstat with eco-codes; allStat and popStat in AmPdata on VU-server with version date; AmP entry prepare system with documentation; import info via structures; further improved presentation/ documentation/ archiving/ searching: e.g. report_my_pet, 6 results_output levels, get_links, select entries for char-strings; augmented loss functions for multi-species further developed; elasticities for bijection data- to parameter-space; pop growth at constant T, f; All entries have a population-traits page; macro-chemical reaction equation coefficients at population level; AmP code for CPM, EBT (Escalator Boxcar train), IBM (Ind-Based pop. Modelling in NetLogo); |
| 2019 |
1806 AmP entries; more cases with f(t), T(t): integration of estimation and environmental trajectory reconstruction; "complete" taxa in AmP: petrels/penguins; 790 DEB library papers on Zotero; better knowledge of pars and patterns: better context for par-evaluation (151 entries in archive); revisions of some basic functions: temperature correction for >1 parameters, maturity for large l_p; updates on evolutionary tree (detailed trees change more frequently); use of clade to identify AmP entries that are most related to one that is not in the collection (Taxonomicon, CoL); improved presentation/documentation/archiving/searching: bib's, citation, manual (DEBwiki, AmPtool); prt_results_my_pet for iteration results; prt_report_my_pet with searching, comparing species, color coding excentricity; application pages on AmP website: work in progress; |
| 2018 |
Searching in species_tree, links from entries to list & tree; self-made tree with distribution of statistics; pedigree with statistics; improved algorithms; confidence intervals based on loss-function profiles; multi-species parameter estimation, augmented loss functions; "complete" taxa in AmP: carnivores; |
| 2017 |
700 AmP entries; changes in the curator team; curation reports/procedure: modular setup; allStat & allEco on GitHub: eco-coding + selection/visualization functions; links to large websites/data-bases; general: Catalog of Life, Taxonomicon, EoL, ADW, Wiki, WoRMS; specialized: molluscabase, fishbase, amphibiaweb, reptile-database, avibase, msw3, AnAge; structure allStat.mat with data for all AmP species; |
| 2016 |
Start of DEBlib on Zotero; setup of DEBtheory.org portal, DEBwiki; |
| 2015 |
318 AmP entries, conversion from Excel-based old to web-based new system with code AmPtool and DEBtool on GitHub; set-up of BibTex-style reference list for each entry; use of Overleaf & Dropbox for organisation in the curator team; creation of debtheory.org; setup of standard in code-documentation and checking-procedures for new entries; Perl-based lists-of-lists for taxonomic structure of entries; creation of DEB mailing list; |
| 2014 |
NECs depend on specific somatic maintenance with Jan Baas; typical reproduction is much less than max with Dina Lika; formation of curator team with weekly Skype's and yearly workshops; set-up par-estimation procedure for multiple entries; use of .mat-files for continuation styling of DEB models, data, parameters; |
| 2013 |
Waste-to-hurry; DEBtool_Octave support is ceased; |
| 2012 |
Bijection between data- and parameter space; quantification of supply-demand spectra; Coupling of DEB theory with NichMapR |
| 2011 |
Type R-acceleration of maturation with Starrlight Augustine; interactions between photo-synthesis, -respiration & -inhibition; start of practical schools prior to DEB symposia with special issues; |
| 2010 |
Topology of allocation schemes with Dina Lika; start of comment-document on DEB3; embryo staging with Starrlight Augustine; |
| 2009 |
Reserve dynamics as consequence of weak homeostasis, partitionablility of reserve dynamics; evolution of central metabolism; start of AQUAdeb group on initiative of Marianne Alunno-Bruscia with regular meetings; first DEB symposium (Brest) with special issue; AmP entries as course exercise; |
| 2008 |
Start writing of DEB3; setting-up of add_my_pet; mergeability of reserve dynamics with Tània Sousa; |
| 2007 |
Type M-acceleration of metabolism with Laure Pecquerie; toxicity of mixtures of many compounds with Jan Baas and Tjalling Jager; |
| 2006 |
Isotope dynamics at individual level; |
| 2005 |
Stochastic mass-conserved formulations for DEB structured popopulations with Johan Grasman & Bob Kooi; entropy of living individuals with Tània Sousa; application of Adaptive Dynamics to DEB structured populations with Tineke Troost & Bob Kooi; |
| 2004 |
Handshaking protocols for Synthesizing Units; mitochondria-cytosol interactions with Lee Segel; |
| 2003 |
Generalisations of the κ-rule; tumour growth, consistency with Mayneord 1932; co-metabolism in microbial degradation, with Bernd Brandt; |
| 2002 |
Ageing acceleration; hazard model for lethal effects of toxicants; Gompertz stress coefficient with Ingeborg van Leeuwen; |
| 2001 |
First tele course, to be repeated each 2 years; stepwise merging of symbiontic partners into a new individual; |
| 2000 |
Conversion of private APL code to public DEBtool in Matlab/Octave; modules for mixotrophy; co-metabolism & inhibition with SUs; |
| 1999 |
Toxicity of mixtures of compounds; reconstruction of film models: explicit pde and boundary conditions co-var rules for parameters one-compartment and film models and for effects of toxicants; |
| 1998 |
Start writing of DEB2; symbiosis on the basis of mutual syntrophy; effect of ionization and lipid content on toxico-kinetics; diverse uptake and elimination routes for toxicants; interaction of toxico-kinetics with metabolism; |
| 1997 |
Excretion of reserves for multiple reserves; Canonical communities; |
| 1996 |
Synthesising Units (SUs) as alternative for enzyme kinetics; writing of analysis of toxicity data with Jacques Bedaux; presentation of this book in OECD workshop (Braunschweig); |
| 1994 |
Multiple substrates, reserves & structures: plants model; |
| 1993 |
First local DEB course based on DEB1; dynamic generalizations of the κ-rule; |
| 1992 |
Static generalisations of the κ-rule; |
| 1991 |
Multiple reserve & partition. of reserve kinetics; |
| 1990 |
Start writing of DEB1; type T-acceleration of metabolism; consistency with Nelder 1961 for bird growth; |
| 1989 |
Ageing as accumulation of damage in 2 steps; Weibull ageing rate; consistency with Gompertz 1825, Weibull 1951; microbial food chains with Bob Kooi; re-interpretation of Drent 1976 data; |
| 1988 |
Reconstruction of food uptake from growth; |
| 1987 |
Mass as conserved quantity in combination with energy; respiration as in indirect calorimetry; consistency with Lavoisier 1780; step from macro- to micro-chemical reaction equations; renovation of DEB notation; |
| 1986 |
The name DEB was chosen on instigation by Joos Joosse; microbial product formation & fermentation: consistency with Leudeking-Piret 1958; |
| 1985 |
Shape correction function; changes in shape; bacteria as static mixtures between V0- and V1-morphs, consistency with Marr-Pirt 1962; |
| 1984 |
Maturity maintenance as energy sink with Horst Thieme; |
| 1983 |
Physical co-variation rules of DEB parameters; consistency with Kleiber 1932; bacterial populations as juveniles; foetal development, consistency with Huggett-Widdas 1951; |
| 1982 |
Embryos are juveniles that don't eat; consistency with Rahn & Ar 1974 for respiration in bird embryos and Smith 1957 in fish embryos; costs of eggs & maternal effects; maturity as state variable; |
| 1981 |
Reserve dynamics reconstructed from cell quota of Droop 1973; effects of toxicants at population level; setup of DEB notation; |
| 1980 |
Sublethal effects of toxicants as changes in parameter-values; parameter values linear in internal concentrations; |
| 1979 |
Start of DEB work with Holling 1959, Pütter 1920, Arrhenius 1889 & κ-rule; start of work on physiologically structured pop. dynamics with Hans Metz & Odo Diekmann; |
| 1978 |
No Effect Concentration (NEC) as tox parameter; |
| 1977 |
Effects of toxicants on survival depend in internal concentration; one compartment model as basic transport model (first TKTD model) ; LC50 as function of exposure time; |