Appendix C. Parameters of SMS runs performed to estimate connectivity for the Cabanis’s greenbul and the natterjack toad.

Parameters of SMS runs performed to estimate connectivity for the Cabanis’s greenbul and the natterjack toad

Statistical analysis.

<p>We investigated the association between the presence of <i>Salmonella</i> Typhimurium on the eggshell of blue and great tits and the egg volume, clutch size, number of nestlings, number of fledglings and SMI. The results are represented as the estimate ± standard deviation (stdev), degrees of freedom (d.f.), t-value and P-value.</p

Appendix F. Connectivity estimates between Cabanis’s greenbul populations.

Connectivity estimates between Cabanis’s greenbul populations

Supplement 3. SAS macro to perform a Mantel test for correlation between two connectivity matrices.

<h2>File List</h2><div> <p><a href="MantelTest.sas">MantelTest.sas</a> (MD5: 3493231a0972b56d432ab7764ea07687)</p> <p><a href="MantelExample.sas">MantelExample.sas</a> (MD5: 784a52d824998e53a6a050cdcfaf44a6)</p> <p><a href="MantelExample4.csv">MantelExample4.csv</a> (MD5: 55e54e31cd86e558e092ece7dfa9afb1)</p> </div><h2>Description</h2><div> -- TABLE: Please see in attached file. -- </div

Appendix A. Map of the Cabanis’s greenbul study area showing the location of the four forest fragments NG, FU, ND, and CH (dark gray) and the composition of the intervening landscape.

Map of the Cabanis’s greenbul study area showing the location of the four forest fragments NG, FU, ND, and CH (dark gray) and the composition of the intervening landscape

Appendix D. Genotyping procedure and genotypic data quality assessment for the Cabanis’s greenbul.

Genotyping procedure and genotypic data quality assessment for the Cabanis’s greenbul

Supplement 2. SMS model used to estimate connectivity for the natterjack toad Epidalea calamita.

<h2>File List</h2><div> <p><a href="Supplement2/ToadBatch04.exe">ToadBatch04.exe</a> (MD5: 17e01d0956e0880e87ef5b6ca3e473d7)</p> <p><a href="Supplement2/Animal.cpp">Animal.cpp</a> (MD5: afea5a9f39adfc5764e881c08eeed9b0)</p> <p><a href="Supplement2/Animal.h">Animal.h</a> (MD5: 4d70ca44f142d4e3e91e3618e6e1c298)</p> <p><a href="Supplement2/Landscape.cpp">Landscape.cpp</a> (MD5: eb7133c1d5a9c057abfdd2abf48c7b04)</p> <p><a href="Supplement2/Landscape.h">Landscape.h</a> (MD5: 2822da8eed0bd8bc0cde4273466aa255)</p> <p><a href="Supplement2/Main.cpp">Main.cpp</a> (MD5: 904510eca61fbfe1c5026a027bf7f4cd)</p> <p><a href="Supplement2/MoveInd.cpp">MoveInd.cpp</a> (MD5: 580fc720826812645d0554ec02cfc3cd)</p> <p><a href="Supplement2/MoveInd.h">MoveInd.h</a> (MD5: fdd9985a8a4828b0b182a965a5b75f50)</p> <p><a href="Supplement2/Parameters.cpp">Parameters.cpp</a> (MD5: ac9f7306c34420f1fd8baa58dbe8895d)</p> <p><a href="Supplement2/Parameters.h">Parameters.h</a> (MD5: fea75e7ecc681373321b9c22719218d7)</p> <p><a href="Supplement2/Toadscape.cpp">Toadscape.cpp</a> (MD5: 0775b97bb9a126985a1eba74611479f5)</p> <p><a href="Supplement2/Toadscape.h">Toadscape.h</a> (MD5: dfba7b9c1af3fd0e1211c348a62082d4)</p> <p><a href="Supplement2/control.txt">control.txt</a> (MD5: 8acb69a8d97b5d846a9ea29df151ea49)</p> <p><a href="Supplement2/parameters.txt">parameters.txt</a> (MD5: 446194a6aa277003091860258a555f33)</p> </div><h2>Description</h2><div> -- TABLE: Please see in attached file. -- <p> </p> <p>Note: The compiled program uses random number generators distributed by Agner Fog, the code for which may be obtained from <a href="http://www.agner.org/random/">http://www.agner.org/random/</a></p> </div

Supplement 1. SMS model used to estimate connectivity for Cabanis’s greenbul Phyllastrephus cabanisi.

<h2>File List</h2><div> <p><a href="Supplement1/SMS3batch.exe">SMS3batch.exe</a> (MD5: c295324f0981eac0cca3be4b0810cecd)</p> <p><a href="Supplement1/Animal.cpp">Animal.cpp</a> (MD5: 4f27e01e983f1b22506518b1a2e7feec)</p> <p><a href="Supplement1/Animal.h">Animal.h</a> (MD5: 7f4d556f3dcd40a3ec982f399ec081a6)</p> <p><a href="Supplement1/Landscape.cpp">Landscape.cpp</a> (MD5: 477ce25efdd9a7e4bd2be34523bea6e1)</p> <p><a href="Supplement1/Landscape.h">Landscape.h</a> (MD5: 641908f1099cc73ac189d2b30334bdf6)</p> <p><a href="Supplement1/Main.cpp">Main.cpp</a> (MD5: 690c6b942cb13b17547245ea87549004)</p> <p><a href="Supplement1/MoveInd.cpp">MoveInd.cpp</a> (MD5: a08570948bff947825e5696df3bcc62d)</p> <p><a href="Supplement1/MoveInd.h">MoveInd.h</a> (MD5: a08570948bff947825e5696df3bcc62d)</p> <p><a href="Supplement1/Parameters.cpp">Parameters.cpp</a> (MD5: ac9f7306c34420f1fd8baa58dbe8895d)</p> <p><a href="Supplement1/Parameters.h">Parameters.h</a> (MD5: 4d74fec25dc290e24ff11e9f083cdc28)</p> <p><a href="Supplement1/control.txt">control.txt</a> (MD5: 6d9b5093aa04f59ad2cf1069f7badc91)</p> <p><a href="Supplement1/parameters.txt">parameters.txt</a> (MD5: 8628fd5998011755db2a829899c88d4a)</p> </div><h2>Description</h2><div> -- TABLE: Please see in attached file. -- <p> </p> <p>Note: The compiled program uses random number generators distributed by Agner Fog, the code for which may be obtained from <a href="http://www.agner.org/random/">http://www.agner.org/random/</a></p> <p> </p> </div

Appendix H. Effect of varying the SMS perceptual range (PR) parameter on the Mantel correlation of the estimated numbers of migrant natterjack toads between sites per generation from the migrate model with estimated connectivity between sites predicted by SMS (red diamonds) using the cost landscape gridded at 3-m resolution and a directional persistence of 10.

Effect of varying the SMS perceptual range (PR) parameter on the Mantel correlation of the estimated numbers of migrant natterjack toads between sites per generation from the migrate model with estimated connectivity between sites predicted by SMS (red diamonds) using the cost landscape gridded at 3-m resolution and a directional persistence of 10

Appendix G. Connectivity estimates between toad populations.

Connectivity estimates between toad populations