{"id":374,"date":"2019-07-24T17:00:45","date_gmt":"2019-07-25T00:00:45","guid":{"rendered":"https:\/\/mlml.sjsu.edu\/invertebrate-ecology\/?page_id=374"},"modified":"2026-04-22T18:34:46","modified_gmt":"2026-04-23T01:34:46","slug":"publications","status":"publish","type":"page","link":"https:\/\/mlml.sjsu.edu\/invertebrate-ecology\/publications\/","title":{"rendered":"Publications"},"content":{"rendered":"

Below are publications produced by students, postdocs, and faculty of the lab.\u00a0 Lab members’ names are underlined<\/span>. Please feel free to email Amanda Kahn<\/a> for reprints.<\/p>\n

2026<\/h2>\n

Girard, F., J.M. Alfaro-Lucas, A.R. Baco, J.P. Barry, K.T. Bigham, L.M. Beckmann, L. Clark, A. Demopoulos, M.A. Davies, A. Dunham, C. Du Preez, E. Escobar-Briones, H. Gartner, K. Johannes, A.S. Kahn<\/strong>, S. Kaiser, B.R.C. Kennedy, L. Levin, N. Lopis Monferrer, A. Powell, C.N. Rooper, C. Smith, A. Stevenson, J.M.A. van der Grient (2026). State of deep-sea research and conservation in the Northeast Pacific and Hawaiian Islands: Implications for policy and Management. Progress in Oceanography<\/em>, 244:103718. doi: 10.1016\/j.pocean.2026.103718.<\/p>\n

2025<\/h2>\n

Aiello, I.W., C. Endris, S. Cunningham, M. Fountain, M.M. Grand, W. Heim, A.S. Kahn<\/strong>, K. Wasson (2025). Coastal wetland deposition of cathode metals from the world\u2019s largest lithium-ion battery fire. Scientific Reports,<\/em> 15(1):42113, doi: 10.1038\/s41598-025-25972-8.<\/p>\n

Hoeke, J.T.<\/u>, K. Wasson, A.S. Kahn<\/span> (2025). Temporal patterns of the introduced sponge Hymeniacidon perlevis<\/em> in the Elkhorn Slough, California, USA. Aquatic Invasions,<\/em> 20(1):33-51, doi: 10.3391\/ai.2025.20.1.145912.<\/p>\n

Leys, S.P., L. Grombacher, D. Field, G.R.D. Elliott, V.R. Ho, A.S. Kahn<\/span>, P.J. Reid, A. Riesgo, E. Lanna, Y. Bobkov, J.F. Ryan, A.L. Horton (2025). A morphological cell atlas of the freshwater sponge Ephydatia muelleri<\/em> with key insights from targeted single-cell transcriptomes. EvoDevo,<\/em> 16:1, doi: 10.1186\/s13227-025-00237-7.<\/p>\n

2024<\/h2>\n

Girard, F., D. Caress, J. Paduan, L. Kuhnz, S. Litvin, E. Flattery, A. Kahn<\/span>, A. DeVogelaere, E. Burton, C. Lovera, E. Martin, J. Barry (2024). Relationship between benthic megafaunal community distribution and habitat heterogeneity on a NE Pacific ridge. Limnology and Oceanography<\/em>, 70(2):377-392, doi: 10.1002\/lno.12766.<\/p>\n

Harris, J.H.<\/u>, L. Gardner, A.S. Kahn<\/span>, A. Ridlon, K. Wasson (2024). Experiments in conservation aquaculture to optimize restoration for Olympia oysters in Elkhorn Slough, CA. Marine Ecology Progress Series<\/em>, 734:45-64, doi.org\/10.3354\/meps14563.<\/p>\n

Leys, S.P., E.J.K. Esposito, A.S. Kahn<\/span>. (2024). The physiology of sponge behavior. Frontiers in Invertebrate Physiology: A Collection of Reviews, Volume 1: Non-Bilaterian Phyla\u00a0<\/em>65\u2013128.<\/p>\n

2023<\/h2>\n

Barry, J.P., S.Y. Litvin, A. DeVogelaere, D.W. Caress, C.F. Lovera, A.S. Kahn<\/span>, E.J. Burton, C. King, J.B. Paduan, C. Geoffrey Wheat, F. Girard, S. Sudek, A.M. Hartwell, A.D. Sherman, P.R. McGill, A. Schnittger, J.R. Voight, E.J. Martin. (2023). Abyssal hydrothermal springs\u2014Cryptic incubators for brooding octopus.\u00a0Science Advances\u00a0<\/em>9<\/strong>:eadg3247.<\/p>\n

Work of journalism: Kahn, A.S.<\/span> and J.P. Barry (2023). Secrets of the octopus garden: Moms nest at thermal springs to give their young the best chance for survival. The Conversation<\/em>. https:\/\/theconversation.com\/secrets-of-the-octopus-garden-moms-nest-at-thermal-springs-to-give-their-young-the-best-chance-for-survival-211887<\/a><\/p>\n

McDermott, S.<\/span>, A. DeVogelaere, J. Barry, A.S. Kahn<\/span>. (2023). Effects of a lost shipping container in the deep sea. National Marine Sanctuary Conservation Series<\/em> ONMS-23-05. U.S. Department of Commerce, National Oceanic and Atmospheric Administration, Office of National Marine Sanctuaries.<\/p>\n

2022<\/h2>\n

Work of journalism: Kahn, A.S.<\/span> (2022). What we could lose from the deep sea. Visible Magazine<\/em>. https:\/\/visiblemagazine.com\/what-we-could-lose-from-the-deep-sea\/<\/a><\/p>\n

Ocean Visions and Monterey Bay Aquarium Research Institute (2022). Answering critical questions about sinking macroalgae for carbon dioxide removal: a research framework to investigate sequestration efficacy and environmental impacts. Available online at: https:\/\/oceanvisions.org\/seaweedresearch<\/a>.<\/p>\n

Leys, S.P., E. Matveev, P. Aragon\u00e9s Suarez,\u00a0A.S. Kahn<\/span>, S. Saeed Asadzadeh, T. Ki\u00f8rboe, P.S. Larsen, J.H. Walther, G. Yahel (2022). Matters Arising \u2018Models of flow through sponges must consider the sponge tissue\u2019. Nature,\u00a0<\/i>603: E23\u2013E25. doi: 10.1038\/s41586-021-04380-8<\/p>\n

Starr, R., J. Caselle, A.S. Kahn<\/span>, A. Lauermann, J. Lindholm, B. Tissot, S. Ziegler, C. Bretz, P. Carlson, K. Cieri,\u00a0J. Hoeke<\/span>, C. Jainese, G. Martel,\u00a0S. McDermott<\/span>, J. Mohay, P. Salinas-Ruiz (2022). Monitoring and evaluation of mid-depth rock ecosystems in the California MLPA Marine Protected Area network. Report to the Ocean Protection Council, Project R\/MPA-48. January 2022. 145 pp.<\/p>\n

2021<\/h2>\n

Naugle, M.S.<\/span>, T.A. Oliver, D.J. Barshis, R.D. Gates, C.A. Logan (2021). Variation in coral thermotolerance across a pollution gradient erodes as coral symbionts shift to more heat-tolerant genera. Frontiers in Marine Science<\/em>, 8: 760\u2013891. doi: 10.3389\/fmars.2021.760891. *co-advised student research published out of the Logan Lab<\/a><\/em><\/p>\n

2020<\/h2>\n

Archer, S.K., A.S. Kahn<\/span>, M. Thiess, L. Law, S.P. Leys, S.C. Johannessen, C.A. Layman, L. Burke, and A. Dunham (2020). Foundation species abundance influences food web topology on glass sponge reefs. Frontiers in Ecology and Evolution, <\/em>7: 799. doi: 10.3389\/fmars.2020.549478.<\/p>\n

Saxena S., Heller P., Kahn A.S.<\/span>, and Aiello I. (2020). Poriferal Vision: classifying benthic sponge spicules to assess historical impacts of marine climate change. In: Helic D, Leitner G, Stettinger M, Felfernig A, Ra\u015b ZW (eds) Foundations of Intelligent Systems<\/em>. Proc International Symposium on Methodologies for Intelligent Systems. Springer, Cham. Vol 121117:205-213.\u00a0 doi: 10.1007\/978-3-030-59491-6_19.<\/p>\n

King, C., J. Brown, E. Burton, A. Kahn<\/span>, A. Hartwell, A. Wood, and D. Hardin (2020). Octopus gardens and a whale fall in Monterey Bay National Marine Sanctuary. In: N.A. Raineault and J. Flanders (Ed.), New frontiers in ocean exploration: The E\/V Nautilus, NOAA Ship Okeanos Explorer, and R\/V Falkor 2019 field season. Oceanography,<\/em> 33(1):50-51, supplement. doi: 10.5670\/oceanog.2020.supplement.01.<\/p>\n

Law, L.K., H.M. Reiswig, B.S. Ott, N. McDaniel, A.S. Kahn<\/span>, K.C. Guillas<\/span>, C. Dinn, and S.P. Leys (2020). Description and distribution of Desmacella hyalina<\/em> sp. nov. (Porifera, Desmacellidae), a new cryptic demosponge in glass sponge reefs from the western coast of Canada. Marine Biodiversity<\/em>, 50(4):1-20. doi: 10.1007\/s12526-020-01076-6. Preprint<\/a>, Data<\/a><\/p>\n

Kahn, A.S.<\/span>, C.W. Pennelly, P.R. McGill, and S.P. Leys (2020).\u00a0 Behaviors of sessile benthic animals in the abyssal northeast Pacific Ocean.\u00a0 Submitted to Deep Sea Research Part II: Topical Studies in Oceanography,<\/em> 173:104729, doi: 10.1016\/j.dsr2.2019.104729. Data<\/a><\/p>\n

2019<\/h2>\n

Guillas, K.C.<\/span>, A.S. Kahn<\/span>, N. Grant, S.K. Archer, A. Dunham, and S.P. Leys (2019).\u00a0 Settlement of juvenile glass sponges and other invertebrate cryptofauna on the Hecate Strait glass sponge reefs.\u00a0 Submitted to Invertebrate Biology<\/em>, 138(4):e12266, doi: 10.1111\/ivb.12266.<\/p>\n

Leys, S.P., J.L. Mah, P.R. McGill, L. Hamonic, and A.S. Kahn<\/span> (2019).\u00a0 Sponge behavior and the chemical basis of responses: a post-genomic view.\u00a0 Integrative and Comparative Biology<\/em>, icz122, doi: 10.1093\/icb\/icz122. Supplementary file<\/a><\/p>\n

Grant, N., E. Matveev, A.S. Kahn<\/span>, S.K. Archer, A. Dunham, R. Bannister, D. Eerkes-Medrano, and S.P. Leys (2019).\u00a0 Effect of suspended sediments on the pumping rates of three species of glass sponge in situ<\/em>.\u00a0 Marine Ecology Progress Series, <\/em>615:79-101. Data<\/a><\/p>\n

2018<\/h2>\n

Leys, S.P., and A.S. Kahn<\/span> (2018).\u00a0 Oxygen and the energetic requirements of the first multicellular animals.\u00a0 Integrative and Comparative Biology<\/em>, icy051. doi: 10.1093\/icb\/icy051.<\/p>\n

Grant, N., E. Matveev, A.S. Kahn<\/span>, and S.P. Leys (2018).\u00a0 Suspended sediment causes feeding current arrests in situ <\/em>in the glass sponge Aphrocallistes vastus<\/em>.\u00a0 Marine Environmental Research<\/em>, 137:111-120. doi: 10.1016\/j.marenvres.2018.02.020. Data<\/a><\/p>\n

Archer, S.K., A.S. Kahn<\/span>, T. Norgard, F. Girard, C. Du Preez, and A. Dunham (2018).\u00a0 Pyrosome consumption by benthic organisms during blooms in the NE Pacific and Gulf of Mexico.\u00a0 Ecology<\/em>, 99(4):981-984, doi: 10.1002\/ecy.2097.<\/p>\n

Kahn, A.S.<\/span>, and J.B. Geller (2018).\u00a0 Partial mitochondrial genome sequences of two abyssal sponges (Porifera, Hexactinellida): Bathydorus laniger<\/em> and Docosaccus maculatus<\/em>.\u00a0 Genome Announcements<\/em> 6e:00234-18, doi: 10.1128\/genomeA.00234-18.<\/p>\n

Kahn, A. S.<\/span>, J.W.F. Chu, and S.P. Leys (2018). Trophic ecology of glass sponge reefs in the Strait of Georgia, British Columbia. Scientific Reports<\/em> 8:756, doi: 10.1038\/s41598-017-19107-x. Data<\/a><\/p>\n

2017<\/h2>\n

Leys, S.P., A.S. Kahn<\/span>, J.K.H. Fang, T. Kutti, and R. Bannister (2017).\u00a0 Phagocytosis of microbial symbionts balances the carbon and nitrogen budget for the deep-water boreal sponge Geodia barretti<\/em>.\u00a0 Limnology and Oceanography<\/em>, 63: 187-202, doi:10.1002\/lno.10623. Data<\/a><\/p>\n

Kahn, A.S.<\/span>, and S.P. Leys (2017).\u00a0 Spicule and flagellated chamber formation in a growth zone of Aphrocallistes vastus<\/em> (Porifera, Hexactinellida).\u00a0 Invertebrate Biology<\/em>, 136(1): 22-30.<\/p>\n

2016<\/h2>\n

Kahn, A.S.<\/span>, and S.P. Leys (2016).\u00a0 The role of cell replacement in benthic-pelagic coupling by suspension feeders.\u00a0 Royal Society Open Science<\/em> 3(11), 160484, doi: 10.1098\/rsos.160484. Data<\/a><\/p>\n

Kahn, A.S.<\/span>, L. Vehring, R.R. Brown, and S.P. Leys (2016). \u00a0Dynamic change, recruitment, and resilience in reef-forming glass sponges.\u00a0 Journal of the Marine Biological Association of the United Kingdom, <\/em>96(2):429-436.<\/p>\n

2015<\/h2>\n

Kahn, A.S.<\/span>, G. Yahel, V. Tunnicliffe, and S.P. Leys (2015).\u00a0 Benthic grazing by deep-water glass sponge reefs.\u00a0 Limnology and Oceanography<\/em>, 60(1):78-88.<\/p>\n

2013<\/h2>\n

Kahn, A.S.<\/span>, J.B. Geller, H.M. Reiswig, and K. L. Smith, Jr. (2013).\u00a0 Bathydorus laniger <\/em>and Docosaccus maculatus<\/em> (Lyssacinosida; Hexactinellida): Two new species of glass sponges from the abyssal eastern North Pacific Ocean.\u00a0 Zootaxa, <\/em>3646:386-400.<\/p>\n

2012<\/h2>\n

Kahn, A.S.<\/span>, H.A. Ruhl, and K.L. Smith, Jr. (2012).\u00a0 Temporal changes in plate sponge populations in the abyssal northeast Pacific.\u00a0 Deep-Sea Research Part I, <\/em>70:36-41.<\/p>\n

2010<\/h2>\n

Kahn, A.S.<\/span>, G.I. Matsumoto, Y.M. Hirano, and A.G. Collins (2010).\u00a0 Haliclystus californiensis<\/em>, a \u201cnew\u201d species of stauromedusa (Cnidaria: Staurozoa) from the northeast Pacific, with a key to the species of Haliclystus<\/em>.\u00a0 Zootaxa<\/em>, 2518:49-59.<\/p>\n

2009<\/h2>\n

Patty, C., B. Barnett, B. Mooney, A. Kahn<\/span>, S. Levy, Y. Liu, P. Pianetta, and J. Andrews (2009).\u00a0 Using X-ray microscopy and Hg L3<\/sub> XANES to study Hg binding in the rhizosphere of Spartina<\/em> cordgrass.\u00a0 Environmental Science and Technology<\/em>, 43(19):7397-7402.<\/p>\n","protected":false},"excerpt":{"rendered":"

Below are publications produced by students, postdocs, and faculty of the lab.\u00a0 Lab members’ names are underlined. Please feel free to email Amanda Kahn for reprints. 2026 Girard, F., J.M. Alfaro-Lucas, A.R. Baco, J.P. Barry, K.T. Bigham, L.M. Beckmann, L. Clark, A. Demopoulos, M.A. Davies, A. Dunham, C. Du Preez, E. Escobar-Briones, H. Gartner, K. […]<\/p>\n","protected":false},"author":239,"featured_media":0,"parent":0,"menu_order":3,"comment_status":"closed","ping_status":"closed","template":"","meta":{"footnotes":""},"categories":[],"tags":[],"class_list":["post-374","page","type-page","status-publish","hentry"],"distributor_meta":false,"distributor_terms":false,"distributor_media":false,"distributor_original_site_name":"Invertebrate Ecology","distributor_original_site_url":"https:\/\/mlml.sjsu.edu\/invertebrate-ecology","push-errors":false,"_links":{"self":[{"href":"https:\/\/mlml.sjsu.edu\/invertebrate-ecology\/wp-json\/wp\/v2\/pages\/374","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/mlml.sjsu.edu\/invertebrate-ecology\/wp-json\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/mlml.sjsu.edu\/invertebrate-ecology\/wp-json\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/mlml.sjsu.edu\/invertebrate-ecology\/wp-json\/wp\/v2\/users\/239"}],"replies":[{"embeddable":true,"href":"https:\/\/mlml.sjsu.edu\/invertebrate-ecology\/wp-json\/wp\/v2\/comments?post=374"}],"version-history":[{"count":21,"href":"https:\/\/mlml.sjsu.edu\/invertebrate-ecology\/wp-json\/wp\/v2\/pages\/374\/revisions"}],"predecessor-version":[{"id":837,"href":"https:\/\/mlml.sjsu.edu\/invertebrate-ecology\/wp-json\/wp\/v2\/pages\/374\/revisions\/837"}],"wp:attachment":[{"href":"https:\/\/mlml.sjsu.edu\/invertebrate-ecology\/wp-json\/wp\/v2\/media?parent=374"}],"wp:term":[{"taxonomy":"category","embeddable":true,"href":"https:\/\/mlml.sjsu.edu\/invertebrate-ecology\/wp-json\/wp\/v2\/categories?post=374"},{"taxonomy":"post_tag","embeddable":true,"href":"https:\/\/mlml.sjsu.edu\/invertebrate-ecology\/wp-json\/wp\/v2\/tags?post=374"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}