remove individual bib files

Author: andybeet

bibliography/Bennet_indicator.bib

@@ -1,55 +1,55 @@
-@article{Balk2010,
-   author = {Balk, Bert M},
-   title = {{An assumption-free framework for measuring productivity change}},
-   journal = {Review of Income and Wealth},
-   volume = {56},
-   number = {s1},
-   pages = {S224-S256},
-   year = {2010},
-   doi = {10.1111/j.1475-4991.2010.00388.x}
-}
-
-@article{Cross2009,
-   author = {Cross, Robin M and Färe, Rolf},
-   title = {{Value data and the Bennet price and quantity indicators}},
-   journal = {Economics Letters},
-   volume = {102},
-   number = {1},
-   pages = {19-21},
-   year = {2009},
-   doi = {10.1016/j.econlet.2008.10.003}
-}
-
-@article{Grifell-Tatje2004,
-   author = {Grifell-Tatjé, Emili and Lovell, CA Knox},
-   title = {{Decomposing the dividend}},
-   journal = {Journal of Comparative Economics},
-   volume = {32},
-   number = {3},
-   pages = {500-518},
-   year = {2004},
-   doi = {10.1016/j.jce.2004.05.002}
-}
-
-@misc{Georgianna2017,
-   author = {Georgianna, Daniel and Lee, Min-Yang and Walden, John},
-   title = {{Contrasting trends in the Northeast United States groundfish and scallop processing industries.}},
-   journal = {Marine Policy},
-   year = {2017},
-   volume = {85},
-   pages = {100-106},
-   doi = {10.1016/j.marpol.2017.08.025}
-}
-
-@article{lim2009,
-  title={{Profit and productivity of US Class I railroads}},
-  author={Lim, Siew Hoon and Lovell, CA Knox},
-  journal={Managerial and Decision Economics},
-  volume={30},
-  number={7},
-  pages={423-442},
-  year={2009},
-  publisher={Wiley Online Library},
-  doi = {10.1002/mde.1462}
-}
-
+@article{Balk2010,
+   author = {Balk, Bert M},
+   title = {{An assumption-free framework for measuring productivity change}},
+   journal = {Review of Income and Wealth},
+   volume = {56},
+   number = {s1},
+   pages = {S224-S256},
+   year = {2010},
+   doi = {10.1111/j.1475-4991.2010.00388.x}
+}
+
+@article{Cross2009,
+   author = {Cross, Robin M and Färe, Rolf},
+   title = {{Value data and the Bennet price and quantity indicators}},
+   journal = {Economics Letters},
+   volume = {102},
+   number = {1},
+   pages = {19-21},
+   year = {2009},
+   doi = {10.1016/j.econlet.2008.10.003}
+}
+
+@article{Grifell-Tatje2004,
+   author = {Grifell-Tatjé, Emili and Lovell, CA Knox},
+   title = {{Decomposing the dividend}},
+   journal = {Journal of Comparative Economics},
+   volume = {32},
+   number = {3},
+   pages = {500-518},
+   year = {2004},
+   doi = {10.1016/j.jce.2004.05.002}
+}
+
+@misc{Georgianna2017,
+   author = {Georgianna, Daniel and Lee, Min-Yang and Walden, John},
+   title = {{Contrasting trends in the Northeast United States groundfish and scallop processing industries.}},
+   journal = {Marine Policy},
+   year = {2017},
+   volume = {85},
+   pages = {100-106},
+   doi = {10.1016/j.marpol.2017.08.025}
+}
+
+@article{lim2009,
+  title={{Profit and productivity of US Class I railroads}},
+  author={Lim, Siew Hoon and Lovell, CA Knox},
+  journal={Managerial and Decision Economics},
+  volume={30},
+  number={7},
+  pages={423-442},
+  year={2009},
+  publisher={Wiley Online Library},
+  doi = {10.1002/mde.1462}
+}
+

bibliography/MAB_HAB.bib

@@ -1,32 +1,32 @@
-@book{WHO2003,
-  title={Guidelines for safe recreational water environments: Coastal and fresh waters},
-  author={World Health Organization},
-  volume={1},
-  year={2003},
-  publisher={World Health Organization}
-}
-
-@article{Tang2009,
-abstract = {Harmful algal blooms caused by Cochlodinium polykrikoides are annual occurrences in coastal systems around the world. In New York (NY), USA, estuaries, bloom densities range from 103to 105mL-1with higher densities (≥104cells mL-1) being acutely toxic to multiple fish and shellfish species. Here, we report on the toxicity of C. polykrikoides strains recently isolated from New York and Massachusetts (USA) estuaries to juvenile fish (Cyprinodon variegates) and bay scallops (Argopecten irradians), as well as on potential mechanisms of toxicity. Cultures of C. polykrikoides exhibited dramatically more potent ichthyotoxicity than raw bloom water with 100{\%} fish mortality occurring within ∼1 h at densities as low as 3.3 × 102cells mL-1. More potent toxicity in culture was also observed in bioassays using juvenile bay scallops, which experienced 100{\%} mortality during 3 days exposure to cultures at cell densities an order of magnitude lower than raw bloom water (∼3 × 103cells mL-1). The toxic activity per C. polykrikoides cell was dependent on the growth stages of cultures with early exponential growth cultures being more potent than cultures in late-exponential or stationary phases. The ichthyotoxicity of cultures was also dependent on both cell density and fish size, as a hyperbolic relationship between the death time of fish and the ratio of algal cell density to length of fish was found (∼103cells mL-1cm-1yielded 100{\%} fish mortality in 24 h). Simultaneous exposure of fish to C. polykrikoides and a second algal species (Rhodomonas salina or Prorocentrum minimum) increased survival time of fish, and decreased the fish mortality suggesting additional cellular biomass mitigated the ichthyotoxicity. Frozen and thawed-, sonicated-, or heat-killed-, C. polykrikoides cultures did not cause fish mortality. In contrast, cell-free culture medium connected to an active culture through a 5 $\mu$m nylon membrane caused complete mortality in fish, although the time required to kill fish was significantly longer than direct exposure to the whole culture. These results indicate that ichthyotoxicity of C. polykrikoides isolates is dependent on viability of cells and that direct physical contact between fish and cells is not required to cause mortality. The ability of the enzymes peroxidase and catalase to significantly reduce the toxicity of live cultures and the inability of hydrogen peroxide to mimic the ichthyotoxicity of C. polykrikoides isolates suggests that the toxicity could be caused by non-hydrogen peroxide, highly reactive, labile toxins such as ROS-like chemicals. {\textcopyright} 2008 Elsevier B.V. All rights reserved.},
-author = {Tang, Ying Zhong and Gobler, Christopher J.},
-doi = {10.1016/j.hal.2008.10.001},
-isbn = {1568-9883},
-issn = {15689883},
-journal = {Harmful Algae},
-keywords = {Cochlodinium polykrikoides,Fish kill,Free radicals,Harmful algal blooms,Ichthyotoxicity,Reactive oxygen species (ROS),Shellfish},
-number = {3},
-pages = {454--462},
-title = {{Characterization of the toxicity of Cochlodinium polykrikoides isolates from Northeast US estuaries to finfish and shellfish}},
-volume = {8},
-year = {2009}
-}
-
-@techreport{VDH2011,
-address = {Richmond, VA},
-author = {Virginia Department of Health},
-institution = {Virginia Department of Health},
-pages = {5--10},
-title = {{Virginia Recreational Water Guidance for Microcystin and Microcystis Blooms: Provisional Guidance}},
-year = {2011}, 
-url = {http://citeseerx.ist.psu.edu/viewdoc/download?doi=10.1.1.432.955&rep=rep1&type=pdf}
-}
+@book{WHO2003,
+  title={Guidelines for safe recreational water environments: Coastal and fresh waters},
+  author={World Health Organization},
+  volume={1},
+  year={2003},
+  publisher={World Health Organization}
+}
+
+@article{Tang2009,
+abstract = {Harmful algal blooms caused by Cochlodinium polykrikoides are annual occurrences in coastal systems around the world. In New York (NY), USA, estuaries, bloom densities range from 103to 105mL-1with higher densities (≥104cells mL-1) being acutely toxic to multiple fish and shellfish species. Here, we report on the toxicity of C. polykrikoides strains recently isolated from New York and Massachusetts (USA) estuaries to juvenile fish (Cyprinodon variegates) and bay scallops (Argopecten irradians), as well as on potential mechanisms of toxicity. Cultures of C. polykrikoides exhibited dramatically more potent ichthyotoxicity than raw bloom water with 100{\%} fish mortality occurring within ∼1 h at densities as low as 3.3 × 102cells mL-1. More potent toxicity in culture was also observed in bioassays using juvenile bay scallops, which experienced 100{\%} mortality during 3 days exposure to cultures at cell densities an order of magnitude lower than raw bloom water (∼3 × 103cells mL-1). The toxic activity per C. polykrikoides cell was dependent on the growth stages of cultures with early exponential growth cultures being more potent than cultures in late-exponential or stationary phases. The ichthyotoxicity of cultures was also dependent on both cell density and fish size, as a hyperbolic relationship between the death time of fish and the ratio of algal cell density to length of fish was found (∼103cells mL-1cm-1yielded 100{\%} fish mortality in 24 h). Simultaneous exposure of fish to C. polykrikoides and a second algal species (Rhodomonas salina or Prorocentrum minimum) increased survival time of fish, and decreased the fish mortality suggesting additional cellular biomass mitigated the ichthyotoxicity. Frozen and thawed-, sonicated-, or heat-killed-, C. polykrikoides cultures did not cause fish mortality. In contrast, cell-free culture medium connected to an active culture through a 5 $\mu$m nylon membrane caused complete mortality in fish, although the time required to kill fish was significantly longer than direct exposure to the whole culture. These results indicate that ichthyotoxicity of C. polykrikoides isolates is dependent on viability of cells and that direct physical contact between fish and cells is not required to cause mortality. The ability of the enzymes peroxidase and catalase to significantly reduce the toxicity of live cultures and the inability of hydrogen peroxide to mimic the ichthyotoxicity of C. polykrikoides isolates suggests that the toxicity could be caused by non-hydrogen peroxide, highly reactive, labile toxins such as ROS-like chemicals. {\textcopyright} 2008 Elsevier B.V. All rights reserved.},
+author = {Tang, Ying Zhong and Gobler, Christopher J.},
+doi = {10.1016/j.hal.2008.10.001},
+isbn = {1568-9883},
+issn = {15689883},
+journal = {Harmful Algae},
+keywords = {Cochlodinium polykrikoides,Fish kill,Free radicals,Harmful algal blooms,Ichthyotoxicity,Reactive oxygen species (ROS),Shellfish},
+number = {3},
+pages = {454--462},
+title = {{Characterization of the toxicity of Cochlodinium polykrikoides isolates from Northeast US estuaries to finfish and shellfish}},
+volume = {8},
+year = {2009}
+}
+
+@techreport{VDH2011,
+address = {Richmond, VA},
+author = {Virginia Department of Health},
+institution = {Virginia Department of Health},
+pages = {5--10},
+title = {{Virginia Recreational Water Guidance for Microcystin and Microcystis Blooms: Provisional Guidance}},
+year = {2011}, 
+url = {http://citeseerx.ist.psu.edu/viewdoc/download?doi=10.1.1.432.955&rep=rep1&type=pdf}
+}

bibliography/Species_dist.bib

@@ -1,7 +1,7 @@
-@article{Friedland2018,
-  title={Event scale and persistent drivers of fish and macroinvertebrate distributions on the Northeast US Shelf},
-  author={Friedland, Kevin D and McManus, M Conor and Morse, Ryan E and Link, Jason S},
-  journal={ICES Journal of Marine Science},
-  year={2018}, 
-  doi = {10.1093/icesjms/fsy167}
-}
+@article{Friedland2018,
+  title={Event scale and persistent drivers of fish and macroinvertebrate distributions on the Northeast US Shelf},
+  author={Friedland, Kevin D and McManus, M Conor and Morse, Ryan E and Link, Jason S},
+  journal={ICES Journal of Marine Science},
+  year={2018}, 
+  doi = {10.1093/icesjms/fsy167}
+}

bibliography/aggregate_groups.bib

@@ -1,20 +1,20 @@
-@article{garrison2000dietary,
-  title={{Dietary guild structure of the fish community in the Northeast United States continental shelf ecosystem}},
-  author={Garrison, Lance P and Link, Jason S},
-  journal={Marine Ecology Progress Series},
-  volume={202},
-  pages={231-240},
-  year={2000},
-  doi = {10.3354/meps202231}
-}
-
-
-@book{link2006EMAX,
-  title={{Documentation for the energy modeling and analysis exercise (EMAX)}},
-  author={Link, Jason S and Griswold, Carolyn A and Methratta, Elizabeth T and Gunnard, Jessie and Brodziak, Jon and Kenton, Tarsus and Col, Laurel A and Dow, David D and Edwards, Steven F and Fogarty, Michael J and Fromm, Steven A and others},
-  year={2006},
-  publisher={US Department of Commerce, National Oceanic and Atmospheric Administration}
-}
-
-
-
+@article{garrison2000dietary,
+  title={{Dietary guild structure of the fish community in the Northeast United States continental shelf ecosystem}},
+  author={Garrison, Lance P and Link, Jason S},
+  journal={Marine Ecology Progress Series},
+  volume={202},
+  pages={231-240},
+  year={2000},
+  doi = {10.3354/meps202231}
+}
+
+
+@book{link2006EMAX,
+  title={{Documentation for the energy modeling and analysis exercise (EMAX)}},
+  author={Link, Jason S and Griswold, Carolyn A and Methratta, Elizabeth T and Gunnard, Jessie and Brodziak, Jon and Kenton, Tarsus and Col, Laurel A and Dow, David D and Edwards, Steven F and Fogarty, Michael J and Fromm, Steven A and others},
+  year={2006},
+  publisher={US Department of Commerce, National Oceanic and Atmospheric Administration}
+}
+
+
+

bibliography/ches_bay_water_quality.bib

@@ -1,28 +1,28 @@
-@techreport{usepa2003,
-  author = {USEPA},
-  institution = {USEPA Region III Chesapeake Bay Program Office EPA 903-R-03-002, Annapolis, Maryland},
-  pages = {1-373},
-  title = {Ambient Water Quality Criteria for Dissolve Oxygen, Water Clarity and Chlorophyll a for the Chesapeake Bay and Its Tidal Tributaries},
-  url = {https://www.chesapeakebay.net/content/publications/cbp_13142.pdf},
-  year = {2003}
-}
-
-@techreport{usepa2017,
-  author = {USEPA},
-  institution = {USEPA Region III Chesapeake Bay Program Office EPA 903-R-03-002, Annapolis, Maryland},
-  pages = {1-373},
-  title = {Ambient Water Quality Criteria for Dissolve Oxygen, Water Clarity and Chlorophyll a for the Chesapeake Bay and Its Tidal Tributaries: 2017 addendum},
-  url = {https://www.chesapeakebay.net/documents/2017_Nov_ChesBayWQ_Criteria_Addendum_Final.pdf},
-  year = {2017}
-}
-
-@article{zhang2018,
-  title={Chesapeake Bay water quality condition has been recovering: Insights from a multimetric indicator assessment of thirty years of tidal monitoring data},
-  author={Zhang, Qian and Murphy, Rebecca R and Tian, Richard and Forsyth, Melinda K and Trentacoste, Emily M and Keisman, Jennifer and Tango, Peter J},
-  journal={Science of The Total Environment},
-  volume={637},
-  pages={1617-1625},
-  year={2018},
-  publisher={Elsevier}, 
-  doi = {10.1016/j.scitotenv.2018.05.025}
+@techreport{usepa2003,
+  author = {USEPA},
+  institution = {USEPA Region III Chesapeake Bay Program Office EPA 903-R-03-002, Annapolis, Maryland},
+  pages = {1-373},
+  title = {Ambient Water Quality Criteria for Dissolve Oxygen, Water Clarity and Chlorophyll a for the Chesapeake Bay and Its Tidal Tributaries},
+  url = {https://www.chesapeakebay.net/content/publications/cbp_13142.pdf},
+  year = {2003}
+}
+
+@techreport{usepa2017,
+  author = {USEPA},
+  institution = {USEPA Region III Chesapeake Bay Program Office EPA 903-R-03-002, Annapolis, Maryland},
+  pages = {1-373},
+  title = {Ambient Water Quality Criteria for Dissolve Oxygen, Water Clarity and Chlorophyll a for the Chesapeake Bay and Its Tidal Tributaries: 2017 addendum},
+  url = {https://www.chesapeakebay.net/documents/2017_Nov_ChesBayWQ_Criteria_Addendum_Final.pdf},
+  year = {2017}
+}
+
+@article{zhang2018,
+  title={Chesapeake Bay water quality condition has been recovering: Insights from a multimetric indicator assessment of thirty years of tidal monitoring data},
+  author={Zhang, Qian and Murphy, Rebecca R and Tian, Richard and Forsyth, Melinda K and Trentacoste, Emily M and Keisman, Jennifer and Tango, Peter J},
+  journal={Science of The Total Environment},
+  volume={637},
+  pages={1617-1625},
+  year={2018},
+  publisher={Elsevier}, 
+  doi = {10.1016/j.scitotenv.2018.05.025}
 }