forked from weecology/sad-comparison
-
Notifications
You must be signed in to change notification settings - Fork 0
/
neutral_comparison_refs.bib
578 lines (521 loc) · 17.1 KB
/
neutral_comparison_refs.bib
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
177
178
179
180
181
182
183
184
185
186
187
188
189
190
191
192
193
194
195
196
197
198
199
200
201
202
203
204
205
206
207
208
209
210
211
212
213
214
215
216
217
218
219
220
221
222
223
224
225
226
227
228
229
230
231
232
233
234
235
236
237
238
239
240
241
242
243
244
245
246
247
248
249
250
251
252
253
254
255
256
257
258
259
260
261
262
263
264
265
266
267
268
269
270
271
272
273
274
275
276
277
278
279
280
281
282
283
284
285
286
287
288
289
290
291
292
293
294
295
296
297
298
299
300
301
302
303
304
305
306
307
308
309
310
311
312
313
314
315
316
317
318
319
320
321
322
323
324
325
326
327
328
329
330
331
332
333
334
335
336
337
338
339
340
341
342
343
344
345
346
347
348
349
350
351
352
353
354
355
356
357
358
359
360
361
362
363
364
365
366
367
368
369
370
371
372
373
374
375
376
377
378
379
380
381
382
383
384
385
386
387
388
389
390
391
392
393
394
395
396
397
398
399
400
401
402
403
404
405
406
407
408
409
410
411
412
413
414
415
416
417
418
419
420
421
422
423
424
425
426
427
428
429
430
431
432
433
434
435
436
437
438
439
440
441
442
443
444
445
446
447
448
449
450
451
452
453
454
455
456
457
458
459
460
461
462
463
464
465
466
467
468
469
470
471
472
473
474
475
476
477
478
479
480
481
482
483
484
485
486
487
488
489
490
491
492
493
494
495
496
497
498
499
500
501
502
503
504
505
506
507
508
509
510
511
512
513
514
515
516
517
518
519
520
521
522
523
524
525
526
527
528
529
530
531
532
533
534
535
536
537
538
539
540
541
542
543
544
545
546
547
548
549
550
551
552
553
554
555
556
557
558
559
560
561
562
563
564
565
566
567
568
569
570
571
572
573
574
575
576
577
578
@article{al2015can,
title={When Can Species Abundance Data Reveal Non-neutrality?},
author={Al Hammal, Omar and Alonso, David and Etienne, Rampal S and Cornell, Stephen J and Allesina, Stefano},
journal={PLOS Computational Biology},
volume={11},
number={3},
year={2015},
publisher={Public Library of Science San Francisco, CA USA}
}
@article{beck2012s,
title={What's on the horizon for macroecology?},
author={Beck, Jan and Ballesteros-Mejia, Liliana and Buchmann, Carsten M and Dengler, J{\"u}rgen and Fritz, Susanne A and Gruber, Bernd and Hof, Christian and Jansen, Florian and Knapp, Sonja and Kreft, Holger and others},
journal={Ecography},
volume={35},
number={8},
pages={673--683},
year={2012},
publisher={Wiley Online Library}
}
@article{blonder2014,
title={Separating Macroecological Pattern and Process: Comparing Ecological, Economic, and Geological Systems},
author={Blonder, Benjamin and Sloat, Lindsey and Enquist, Brian J and McGill, Brian},
journal={PlOS one},
volume={9},
number={11},
pages={e112850},
year={2014},
publisher={Public Library of Science}
}
@article{bulmer1974,
title={On fitting the Poisson lognormal distribution to species-abundance data},
author={Bulmer, MG},
journal={Biometrics},
pages={101--110},
year={1974},
publisher={JSTOR}
}
@book{burnham2002,
title={Model selection and multimodel inference: a practical information-theoretic approach},
author={Burnham, Kenneth P and Anderson, David R},
year={2002},
publisher={Springer}
}
@book{cbc,
title={The Christmas Bird Count historical results},
author={National Audubon Society},
year={2002},
publisher={National Audobon Society, New York, New York, USA.},
url={http://www.audubon.org/bird/cbc}
}
@article{clark1999,
title={Generalizations of power-law distributions applicable to sampled fault-trace lengths: model choice, parameter estimation and caveats},
author={Clark, RM and Cox, SJD and Laslett, GM},
journal={Geophysical Journal International},
volume={136},
number={2},
pages={357--372},
year={1999},
publisher={Oxford University Press}
}
@article{connolly2005,
title={Community structure of corals and reef fishes at multiple scales},
author={Connolly, Sean R and Hughes, Terry P and Bellwood, David R and Karlson, Ronald H},
journal={Science},
volume={309},
number={5739},
pages={1363--1365},
year={2005},
publisher={American Association for the Advancement of Science}
}
@article{connolly2014,
title={Commonness and rarity in the marine biosphere},
author={Connolly, Sean R and MacNeil, M Aaron and Caley, M Julian and Knowlton, Nancy and Cripps, Ed and Hisano, Mizue and Thibaut, Lo{\"\i}c M and Bhattacharya, Bhaskar D and Benedetti-Cecchi, Lisandro and Brainard, Russell E and others},
journal={Proceedings of the National Academy of Sciences},
pages={201406664},
year={2014},
publisher={National Acad Sciences}
}
@article{coyle2013,
title={Opposing mechanisms drive richness patterns of core and transient bird species},
author={Coyle, Jessica R and Hurlbert, Allen H and White, Ethan P},
journal={The American Naturalist},
volume={181},
number={4},
pages={E83--E90},
year={2013},
publisher={JSTOR}
}
@article{crain2008interactive,
title={Interactive and cumulative effects of multiple human stressors in marine systems},
author={Crain, Caitlin Mullan and Kroeker, Kristy and Halpern, Benjamin S},
journal={Ecology letters},
volume={11},
number={12},
pages={1304--1315},
year={2008},
publisher={Wiley Online Library}
}
@book{fia,
title={Forest inventory and analysis national core field guide (Phase 2 and 3). Version 4.0.},
author={[FIA USDA Forest Service},
year={2010},
publisher={USDA Forest Service, Forest Inventory and Analysis}
}
@article{frank2011,
title={Measurement scale in maximum entropy models of species abundance},
author={Frank, Steven A},
journal={Journal of evolutionary biology},
volume={24},
number={3},
pages={485--496},
year={2011},
publisher={Wiley Online Library}
}
@article{gray1979,
title={Pollution-induced changes in populations [and discussion]},
author={Gray, JS and Waldichuk, M and Newton, AJ and Berry, RJ and Holden, AV and Pearson, TH},
journal={Philosophical Transactions of the Royal Society B: Biological Sciences},
volume={286},
number={1015},
pages={545--561},
year={1979},
publisher={The Royal Society}
}
@book{goudie2013human,
title={The human impact on the natural environment: past, present, and future},
author={Goudie, Andrew S},
year={2013},
publisher={John Wiley \& Sons}
}
@article{grayson2001archaeological,
title={The archaeological record of human impacts on animal populations},
author={Grayson, Donald K},
journal={Journal of World Prehistory},
volume={15},
number={1},
pages={1--68},
year={2001},
publisher={Springer}
}
@article{harte2008,
title={Maximum entropy and the state-variable approach to macroecology},
author={Harte, J and Zillio, T and Conlisk, E and Smith, AB},
journal={Ecology},
volume={89},
number={10},
pages={2700--2711},
year={2008},
publisher={Eco Soc America}
}
@book{harte2011,
title={Maximum entropy and ecology: a theory of abundance, distribution, and energetics},
author={Harte, John},
year={2011},
publisher={Oxford University Press}
}
@article{haberl2007quantifying,
title={Quantifying and mapping the human appropriation of net primary production in earth's terrestrial ecosystems},
author={Haberl, Helmut and Erb, K Heinz and Krausmann, Fridolin and Gaube, Veronika and Bondeau, Alberte and Plutzar, Christoph and Gingrich, Simone and Lucht, Wolfgang and Fischer-Kowalski, Marina},
journal={Proceedings of the National Academy of Sciences},
volume={104},
number={31},
pages={12942--12947},
year={2007},
publisher={National Acad Sciences}
}
@article{horne2015,
title={Temperature-size responses match latitudinal-size clines in arthropods, revealing critical differences between aquatic and terrestrial species},
author={Horne, Curtis R and Hirst, Andrew and Atkinson, David and others},
journal={Ecology letters},
volume={18},
number={4},
pages={327--335},
year={2015},
publisher={Wiley Online Library}
}
@book{hubbell2001,
title={The unified neutral theory of biodiversity and biogeography (MPB-32)},
author={Hubbell, Stephen P},
volume={32},
year={2001},
publisher={Princeton University Press}
}
@article{jackson2001historical,
title={Historical overfishing and the recent collapse of coastal ecosystems},
author={Jackson, Jeremy BC and Kirby, Michael X and Berger, Wolfgang H and Bjorndal, Karen A and Botsford, Louis W and Bourque, Bruce J and Bradbury, Roger H and Cooke, Richard and Erlandson, Jon and Estes, James A and others},
journal={science},
volume={293},
number={5530},
pages={629--637},
year={2001},
publisher={American Association for the Advancement of Science}
}
@article{keith2012macroecology,
title={What is macroecology?},
author={Keith, Sally A and Webb, Tom J and B{\"o}hning-Gaese, Katrin and Connolly, Sean R and Dulvy, Nicholas K and Eigenbrod, Felix and Jones, Kate E and Price, Trevor and Redding, David W and Owens, Ian PF and others},
journal={Biology letters},
volume={8},
number={6},
pages={904--906},
year={2012},
publisher={The Royal Society}
}
@article{locey2013,
title={How species richness and total abundance constrain the distribution of abundance},
author={Locey, Kenneth J and White, Ethan P},
journal={Ecology letters},
volume={16},
number={9},
pages={1177--1185},
year={2013},
publisher={Wiley Online Library}
}
@article{magurran2003,
title={Explaining the excess of rare species in natural species abundance distributions},
author={Magurran, Anne E and Henderson, Peter A},
journal={Nature},
volume={422},
number={6933},
pages={714--716},
year={2003},
publisher={Nature Publishing Group}
}
@article{magurran2007,
title={Species abundance distributions over time},
author={Magurran, Anne E},
journal={Ecology Letters},
volume={10},
number={5},
pages={347--354},
year={2007},
publisher={Wiley Online Library}
}
@book{magurran2013,
title={Measuring biological diversity},
author={Magurran, Anne E},
year={2013},
publisher={John Wiley \& Sons}
}
@article{mannino2002depletion,
title={Depletion of a resource? The impact of prehistoric human foraging on intertidal mollusc communities and its significance for human settlement, mobility and dispersal},
author={Mannino, Marcello A and Thomas, Kenneth D},
journal={World Archaeology},
volume={33},
number={3},
pages={452--474},
year={2002},
publisher={Taylor \& Francis}
}
@article{matthews2014neutral,
title={Neutral theory and the species abundance distribution: recent developments and prospects for unifying niche and neutral perspectives},
author={Matthews, Thomas J and Whittaker, Robert J},
journal={Ecology and evolution},
volume={4},
number={11},
pages={2263--2277},
year={2014},
publisher={Wiley Online Library}
}
@article{matthews2014,
title={Fitting and comparing competing models of the species abundance distribution: assessment and prospect},
author={Matthews, Thomas J and Whittaker, Robert J},
journal={Frontiers of Biogeography},
volume={6},
number={2},
year={2014}
}
@article{mcgill2003,
title={A test of the unified neutral theory of biodiversity},
author={McGill, Brian J},
journal={Nature},
volume={422},
number={6934},
pages={881--885},
year={2003},
publisher={Nature Publishing Group}
}
@article{mcgill2006,
title={Empirical evaluation of neutral theory},
author={McGill, Brian J and Maurer, Brian A and Weiser, Michael D},
journal={Ecology},
volume={87},
number={6},
pages={1411--1423},
year={2006},
publisher={Eco Soc America}
}
@article{mcgill2007,
title={Species abundance distributions: moving beyond single prediction theories to integration within an ecological framework},
author={McGill, Brian J and Etienne, Rampal S and Gray, John S and Alonso, David and Anderson, Marti J and Benecha, Habtamu Kassa and Dornelas, Maria and Enquist, Brian J and Green, Jessica L and He, Fangliang and others},
journal={Ecology letters},
volume={10},
number={10},
pages={995--1015},
year={2007},
publisher={Wiley Online Library}
}
@article{mcgill2010,
title={Mechanisms in macroecology: AWOL or purloined letter? Towards a pragmatic view of mechanism},
author={McGill, Brian J and Nekola, Jeffrey C},
journal={Oikos},
volume={119},
number={4},
pages={591--603},
year={2010},
publisher={Wiley Online Library}
}
@article{morlon2009,
title={Taking species abundance distributions beyond individuals},
author={Morlon, H{\'e}l{\`e}ne and White, Ethan P and Etienne, Rampal S and Green, Jessica L and Ostling, Annette and Alonso, David and Enquist, Brian J and He, Fangliang and Hurlbert, Allen and Magurran, Anne E and others},
journal={Ecology Letters},
volume={12},
number={6},
pages={488--501},
year={2009},
publisher={Wiley Online Library}
}
@article{morris2013,
title={The EcoData Retriever: Improving Access to Existing Ecological Data},
author={Morris, Benjamin D and White, Ethan P},
journal={PloS one},
volume={8},
number={6},
pages={e65848},
year={2013},
publisher={Public Library of Science}
}
@book{naba,
title={NABA butterfly counts: 2009 Report},
author={[NABA North American Butterfly Association},
year={2009},
publisher={NABA, Morristown, New Jersey, USA},
url={http://www.naba.org}
}
@article{paine2010macroecology,
title={Macroecology: does it ignore or can it encourage further ecological syntheses based on spatially local experimental manipulations?},
author={Paine, Robert T},
journal={The American Naturalist},
volume={176},
number={4},
pages={385--393},
year={2010},
publisher={JSTOR}
}
@book{pardieck2014,
title={North American Breeding Bird Survey Dataset 1966 - 2013, version 2013.0},
author={Pardieck, Keith L and Ziolkowski Jr, David J and Hudson, M.-A.R.},
year={2014},
publisher={U.S. Geological Survey, Patuxent Wildlife Research Center},
url={http://www.pwrc.usgs.gov/BBS/RawData/}
}
@article{patil1982,
title={Diversity as a concept and its measurement},
author={Patil, GP and Taillie, Charles},
journal={Journal of the American Statistical Association},
volume={77},
number={379},
pages={548--561},
year={1982},
publisher={Taylor \& Francis}
}
@book{phillips2002,
title={Global patterns of plant diversity: Alwyn H. Gentry's forest transect data set},
author={Phillips, Oliver and Miller, James S},
year={2002},
publisher={Missouri Botanical Garden Press St., Louis, Missouri}
}
@misc{pielou1975,
title={Ecological diversity},
year={1975},
author={Pielou, EC},
publisher={Wiley, New York}
}
@article{pueyo2006,
title={Diversity: between neutrality and structure},
author={Pueyo, Salvador},
journal={Oikos},
volume={112},
number={2},
pages={392--405},
year={2006},
publisher={Wiley Online Library}
}
@article{rosindelletal2011,
title={The unified neutral theory of biodiversity and biogeography at age ten},
author={Rosindell, James and Hubbell, Stephen P and Etienne, Rampal S},
journal={Trends in ecology \& evolution},
volume={26},
number={7},
pages={340--348},
year={2011},
publisher={Elsevier}
}
@article{rosindelletal2012,
title={The case for ecological neutral theory},
author={Rosindell, James and Hubbell, Stephen P and He, Fangliang and Harmon, Luke J and Etienne, Rampal S},
journal={Trends in ecology \& evolution},
volume={27},
number={4},
pages={203--208},
year={2012},
publisher={Elsevier}
}
@book{tittensor2009chapter,
title={CHAPTER TWELVE MACROECOLOGICAL CHANGES IN EXPLOITED MARINE SYSTEMS},
author={Tittensor, Derek P and Worm, Boris and Myers, Ransom A},
journal={Marine macroecology},
pages={310},
year={2009},
publisher={University of Chicago Press}
}
@article{thibault2004,
title={Temporal dynamics in the structure and composition of a desert rodent community},
author={Thibault, Katherine M and White, Ethan P and Ernest, SK Morgan},
journal={Ecology},
volume={85},
number={10},
pages={2649--2655},
year={2004},
publisher={Eco Soc America}
}
@article{thibault2011,
title={Species composition and abundance of mammalian communities: Ecological Archives E092-201},
author={Thibault, Katherine M and Supp, Sarah R and Giffin, Mikaelle and White, Ethan P and Ernest, SK Morgan},
journal={Ecology},
volume={92},
number={12},
pages={2316--2316},
year={2011},
publisher={Eco Soc America}
}
@article{trebilco2013ecosystem,
title={Ecosystem ecology: size-based constraints on the pyramids of life},
author={Trebilco, Rowan and Baum, Julia K and Salomon, Anne K and Dulvy, Nicholas K},
journal={Trends in ecology \& evolution},
volume={28},
number={7},
pages={423--431},
year={2013},
publisher={Elsevier}
}
@article{ulrich2006,
title={Abundance and co-occurrence patterns of core and satellite species of ground beetles on small lake islands},
author={Ulrich, Werner and Zalewski, Marcin},
journal={Oikos},
volume={114},
number={2},
pages={338--348},
year={2006},
publisher={Wiley Online Library}
}
@article{volkov2003,
title={Neutral theory and relative species abundance in ecology},
author={Volkov, Igor and Banavar, Jayanth R and Hubbell, Stephen P and Maritan, Amos},
journal={Nature},
volume={424},
number={6952},
pages={1035--1037},
year={2003},
publisher={Nature Publishing Group}
}
@article{volkov2005,
title={Density dependence explains tree species abundance and diversity in tropical forests},
author={Volkov, Igor and Banavar, Jayanth R and He, Fangliang and Hubbell, Stephen P and Maritan, Amos},
journal={Nature},
volume={438},
number={7068},
pages={658--661},
year={2005},
publisher={Nature Publishing Group}
}
@article{volkov2006,
title={Theoretical biology: comparing models of species abundance (reply)},
author={Volkov, Igor and Banavar, Jayanth R and He, Fangliang and Hubbell, Stephen P and Maritan, Amos},
journal={Nature},
volume={441},
number={7089},
pages={E1--E2},
year={2006},
publisher={Nature Publishing Group}
}
@article{warwick1986,
title={A new method for detecting pollution effects on marine macrobenthic communities},
author={Warwick, RaM},
journal={Marine biology},
volume={92},
number={4},
pages={557--562},
year={1986},
publisher={Springer}
}
@article{webb2012,
title={Marine and terrestrial ecology: unifying concepts, revealing differences},
author={Webb, Thomas J},
journal={Trends in ecology \& evolution},
volume={27},
number={10},
pages={535--541},
year={2012},
publisher={Elsevier}
}
@article{white2008,
title={On estimating the exponent of power-law frequency distributions},
author={White, Ethan P and Enquist, Brian J and Green, Jessica L},
journal={Ecology},
volume={89},
number={4},
pages={905--912},
year={2008},
publisher={Eco Soc America}
}
@article{white2012,
title={Characterizing species abundance distributions across taxa and ecosystems using a simple maximum entropy model},
author={White, Ethan P and Thibault, Katherine M and Xiao, Xiao},
journal={Ecology},
volume={93},
number={8},
pages={1772--1778},
year={2012},
publisher={Eco Soc America}
}