Capturing California's Flowers: Using Digital Images to Investigate Phenological Change in a Biodiversity Hotspot: Difference between revisions

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Digitization TCN: Capturing California's Flowers: Using Digital Images to Investigate Phenological Change in a Biodiversity Hotspot (CAP)

CAP TCN

Quick Links
Project Summary
Current Research
Project Websites
Publications

Project Summary

Flowering time is an important biological phenomenon, affecting human societies through its effects on agricultural crops, pollinators, pests, and biodiversity. Given the sensitivity of flowering times to climatic conditions, a thorough understanding of how plants respond to changing environments is necessary for predicting the consequences for pollinators, herbivores, parasites, and plant populations. A record of historical flowering times is found within the nation's herbaria. This award establishes a thematic collection network (TCN) dedicated to understanding flowering time shifts in the California flora. California has the most diverse native flora of any state in the U.S., containing more than one-third of all U.S. plant species. The state is a biodiversity hotspot due to the high number of endemic species that are also threatened. The Capturing California's Flowers (CAP) TCN will record flowering times from and create images of over 900,000 herbarium specimens from the oldest records, the most diverse families, and most threatened families in California. Twenty-two institutions spanning the state, including public universities, state agencies, museums, and botanic gardens, will participate in these efforts. This project will generate data that will increase our understanding of flowering time shifts - a critical need for agriculturalists, conservation biologists, plant taxonomists, land managers, and wildlife biologists.

Digitization of each specimen in the CAP TCN will result in a high-resolution image, a databased record of collection metadata, a georeferenced point, and the reproductive status of the specimen. New tools will be developed for the public to search and display phenological data through a Symbiota portal interface. The CAP TCN will develop novel data standards for capturing and sharing trait data from specimens. Building on already successful national and regional programs, the CAP TCN will partner with schools, universities, botanical clubs, and the general public to crowd source phenological measurements through online expeditions, workshops, new college courses, and K-12 educational programs. The CAP TCN will provide a historical record of plants currently being monitored through the National Phenology Network and other regional programs. Finally, this award will expand efforts to train the "next generation" of museum curators, collectors, and researchers.

Current Research

Project Websites & Social Media

CAP TCN Website

Twitter Page

Citizen Science & Outreach Projects

Project Leadership

Project sponsor: California Polytechnic State University San Luis Obispo (NSF Award #1802301)

Principal Investigator (PI): Jennifer Yost
Project Manager: Katie Pearson
Data Manager: Jason Alexander

Project Collaborators

Digitizing Institutions

California Polytechnic State University San Luis Obispo (OBI)

Jennifer Yost (Lead PI), California Polytechnic State University San Luis Obispo (NSF Award #1802301)

University of California - Berkeley (UC/JEPS)

Brent Mischler, (PI), University of California - Berkeley (NSF Award #1802163)

University of California - Santa Barbara (UCSB)

Susan J. Mazer, (PI), University of California - Santa Barbara (NSF Award #1802181)
Katja Seltmann (Co-PI), University of California - Santa Barbara

California Parks and Recreation, Colorado Desert District (BSCA)

Danny McCamish, senior environmental scientist
Jim Dice, reserve manager
Larry Hendrickson, senior park aide

California State University, Chico (CHSC)

Colleen Hatfield, (PI), California State University, Chico (NSF Award #1802182)
Lawrence Janeway, herbarium curator

California State University, Los Angeles (CSLA)

Kirsten Fisher, (PI), California State University, Los Angeles (NSF Award #1802191)

California State University, San Bernardino (CSUSB)

Kimberlyn Williams, (PI), California State University, San Bernardino

University of California - Davis (DAV)

Daniel Potter, (PI), University of California - Davis (NSF Award #1802203)
Ellen Dean, herbarium curator
Teri Barry, collections manager

California State University, Fresno (FSC)

Katherine E. Waselkov, (PI), California State University, Fresno (NSF Award #1802178)

Humboldt State University (HSC)

Michael R. Mesler, (PI), Humboldt State University (NSF Award #1802185)
Robin Bencie, collections manager

University of California - Irvine (IRVC)

Peter A. Bowler, (PI), University of California - Irvine (NSF Award #1802312)
Rebecca Crowe, nursery manager

University of California - Los Angeles (LA)

Philip Rundel, (PI), University of California - Los Angeles (NSF Award #1802199)
Thomas Huggins, herbarium coordinator

California State University, Long Beach (LOB)

Amanda E. Fisher, (PI),California State University, Long Beach (NSF Award #1802192)

California State University, Fullerton (MACF)

Joshua P. Der, (PI), California State University, Fullerton (NSF Award #1802200)
Jochen Schenk, (Co-PI), California State University, Fullerton

Rancho Santa Ana Botanic Garden (RSA)

Mare Nazaire, (PI), Rancho Santa Ana Botanic Garden (NSF Award #1802183)
Lucinda McDade (co-PI), Claremont Graduate University

Santa Barbara Botanic Garden (SBBG)

Matt Guilliams, (PI) Santa Barbara Botanic Garden (NSF Award #1802176)
Lucie Gimmel, herbarium curatorial assistant
Kristen Lehman, laboratory manager

San Diego Natural History Museum (SD)

Layla Aerne Haines, (PI), San Diego Natural History Museum (NSF Award #1802186)
Jon Rebman, (co-PI), San Diego Natural History Museum

San Diego State University (SDSU)

Michael G. Simpson, (PI), San Diego State University (NSF Award #1802180)
Lluvia Flores-Renteria (Co-PI), San Diego State University

California State University, Northridge (SFV)

Paul S. Wilson, (PI), California State University, Northridge (NSF Award #1802194)
Jim Hogue, database manager

San Jose State University (SJSU)

Benjamin Carter, (PI), San Jose State University (NSF Award #1802177)
Lars Rosengreen, herbarium curator

University of California - Riverside (UCR)

Amy Litt, (PI), University of California - Riverside (NSF Award #1802188)
Andy Sanders, curator

University of California - Santa Cruz (UCSC)

Karen Holl, (PI), University of California - Santa Cruz
Al Keuter, herbarium manager
Chris Lay, curator, Kenneth Norris Center for Natural History

Unfunded participants

San Francisco State University (SFSU)

Jason Cantley, assistant professor

California State University, Stanislaus (SHTC)

Andrew Gardner, assistant professor of botany

Protocols & Workflows

Detailed protocols, workflows, and other documentation can be found on the project website: http://www.capturingcaliforniasflowers.org

Publications

Alexander, Jason A. (2019). Upcoming changes in the Consortium of California Herbaria, Madroño, 66(1), 37-38. https://doi.org/10.3120/0024-9637-66.1.37
Lorieul, Titouan, Pearson, Katelin D., Ellwood, Elizabeth R., Goëau, Hervé, Molino, Jean-Francois, Sweeney, Patrick W., Yost, Jennifer M., Sachs, Joel, Mata-Montero, Erick, Nelson, Gil, Soltis, Pamela S. & Bonnet, Pierre (2019). Toward a large-scale and deep phenological stage annotation of herbarium specimens: Case studies from temperate, tropical, and equatorial floras, Applications in Plant Sciences,7(3), e01233. https://doi.org/10.1002/aps3.1233

Professional Presentations

PM = project manager PI = principal investigator

Olmeda BL [undergraduate], Cuadra S [undergraduate], Barnett A [undergraduate], Rice M [undergraduate], Fisher AE [PI]. Capturing California’s Flowers at the Beach: Herbarium Specimen Imaging at Long Beach State (LOB). Poster to be presented at Botany, July 2019, Tucson, Arizona.

McGowan H [undergraduate], Fisher AE [PI]. A Flora of the Chiquito Basin, Santa Ana Mountains, Peninsular Ranges of Southern California. Poster to be presented at Botany, July 2019, Tucson, Arizona.

Pearson KD [PM], Yost JM [PI]. 2019. Capturing flowering time data from herbarium specimens: The California Phenology TCN. Poster presented at: Southern California Botanists Symposium; 2018 November 8; Claremont, CA. Presented by Katie Pearson [PM].

Pearson KD [PM], Yost JM [PI]. Capturing flowering time data from herbarium specimens: The California Phenology TCN. Poster presented at: Digital Data in Biodiversity Research Conference; 2019 June 11; New Haven, CT. Presented by Katie Pearson [PM].

Pearson KD [PM], Yost JM [PI]. Capturing flowering time data from herbarium specimens: The California Phenology TCN. Poster presented at: Botanical Society of America (Botany) 2019; 2019 July 30; Tucson, AZ. Presented by Katie Pearson [PM].

Pearson KD [PM], Yost JM [PI]. Capturing flowering time data from herbarium specimens: The California Phenology TCN. Poster presented at: California Botanical Society Graduate Student Symposium; 2019 April 6; San Luis Obispo, CA. Presented by Annie Ayers [undergraduate].

Tang K [undergraduate], Fisher AE [PI]. A Visual Guide and Morphometric Analysis of Leaf Shapes of Common Shrubs of the Santa Ana Mountains of Southern California. Poster to be presented at Botany, July 2019, Tucson, Arizona.

@@ Line 5: / Line 5: @@
 ! colspan="2" style="background:#D58B28;width:200px;font-size:10pt" | CAP TCN
 |-
-| colspan="2" style="text-align:center;font-size:7pt" | [[]]
+| colspan="2" style="text-align:center;font-size:7pt" | [[File:CAPLogo.jpg|200px]]
 |-
 !colspan="2" style="background:#D58B28;text-align:center;font-size:9pt" | Quick Links
@@ Line 29: / Line 29: @@
 [https://www.capturingcaliforniasflowers.org CAP TCN Website]
+[https://twitter.com/CalPhenologyTCN Twitter Page]
 === Citizen Science & Outreach Projects ===
@@ Line 41: / Line 43: @@
 === Project Collaborators  ===
-====California Polytechnic State University San Luis Obispo====
+====Digitizing Institutions====
+=====California Polytechnic State University San Luis Obispo (OBI)=====
 Jennifer Yost (Lead PI), California Polytechnic State University San Luis Obispo [http://www.nsf.gov/awardsearch/showAward?AWD_ID=1802301 (NSF Award #1802301)]
-====University of California - Berkeley====
+=====University of California - Berkeley (UC/JEPS)=====
 Brent Mischler, (PI), University of California - Berkeley [http://www.nsf.gov/awardsearch/showAward?AWD_ID=1802163 (NSF Award #1802163)]<br>
-====University of California - Santa Barbara====
+=====University of California - Santa Barbara (UCSB)=====
 Susan J. Mazer, (PI), University of California - Santa Barbara [http://www.nsf.gov/awardsearch/showAward?AWD_ID=1802181 (NSF Award #1802181)]<br>
 Katja Seltmann (Co-PI), University of California - Santa Barbara <br>
-====Santa Barbara Botanic Garden====
+=====California Parks and Recreation, Colorado Desert District (BSCA)=====
-Christopher Guiliams, (PI) Santa Barbara Botanic Garden [http://www.nsf.gov/awardsearch/showAward?AWD_ID=1802176 (NSF Award #1802176)]<br>
+Danny McCamish, senior environmental scientist <br>
-Lucie Gimmel, herbarium curatorial assistant
+Jim Dice, reserve manager <br>
-Kristen Lehman, laboratory manager
+Larry Hendrickson, senior park aide
+=====California State University, Chico (CHSC)=====
+Colleen Hatfield, (PI), California State University, Chico [http://www.nsf.gov/awardsearch/showAward?AWD_ID=1802182 (NSF Award #1802182)]<br>
+Lawrence Janeway, herbarium curator
+=====California State University, Los Angeles (CSLA)=====
+Kirsten Fisher, (PI), California State University, Los Angeles [http://www.nsf.gov/awardsearch/showAward?AWD_ID=1802191 (NSF Award #1802191)]<br>
+=====California State University, San Bernardino (CSUSB)=====
+Kimberlyn Williams, (PI), California State University, San Bernardino
-====San Jose State University====
+=====University of California - Davis (DAV)=====
-Benjamin Carter, (PI), San Jose State University [http://www.nsf.gov/awardsearch/showAward?AWD_ID=1802177 (NSF Award #1802177)]<br>
+Daniel Potter, (PI), University of California - Davis [http://www.nsf.gov/awardsearch/showAward?AWD_ID=1802203 (NSF Award #1802203)]<br>
+Ellen Dean, herbarium curator <br>
+Teri Barry, collections manager
-====California State University, Fresno====
+=====California State University, Fresno (FSC)=====
 Katherine E. Waselkov, (PI), California State University, Fresno [http://www.nsf.gov/awardsearch/showAward?AWD_ID=1802178 (NSF Award #1802178)]<br>
-====San Diego State University====
+=====Humboldt State University (HSC)=====
-Michael G. Simpson, (PI), San Diego State University [http://www.nsf.gov/awardsearch/showAward?AWD_ID=1802180 (NSF Award #1802180)]<br>
+Michael R. Mesler, (PI), Humboldt State University [http://www.nsf.gov/awardsearch/showAward?AWD_ID=1802185 (NSF Award #1802185)]<br>
-Lluvia Flores-Renteria (Co-PI), San Diego State University
+Robin Bencie, collections manager
-John Sanborn, database/web support specialist
+=====University of California - Irvine (IRVC)=====
+Peter A. Bowler, (PI), University of California - Irvine [http://www.nsf.gov/awardsearch/showAward?AWD_ID=1802312 (NSF Award #1802312)]<br>
+Rebecca Crowe, nursery manager
+=====University of California - Los Angeles (LA)=====
+Philip Rundel, (PI), University of California - Los Angeles [http://www.nsf.gov/awardsearch/showAward?AWD_ID=1802199 (NSF Award #1802199)]<br>
+Thomas Huggins, herbarium coordinator
+=====California State University, Long Beach (LOB)=====
+Amanda E. Fisher, (PI),California State University, Long Beach [http://www.nsf.gov/awardsearch/showAward?AWD_ID=1802192 (NSF Award #1802192)]<br>
-====California State University, Chico====
+=====California State University, Fullerton (MACF)=====
-Colleen Hatfield, (PI), California State University, Chico [http://www.nsf.gov/awardsearch/showAward?AWD_ID=1802182 (NSF Award #1802182)]<br>
+Joshua P. Der, (PI), California State University, Fullerton [http://www.nsf.gov/awardsearch/showAward?AWD_ID=1802200 (NSF Award #1802200)]<br>
+Jochen Schenk, (Co-PI), California State University, Fullerton <br>
-====Rancho Santa Ana Botanic Garden====
+=====Rancho Santa Ana Botanic Garden (RSA)=====
 Mare Nazaire, (PI), Rancho Santa Ana Botanic Garden [http://www.nsf.gov/awardsearch/showAward?AWD_ID=1802183 (NSF Award #1802183)]<br>
 Lucinda McDade (co-PI), Claremont Graduate University <br>
-====Humboldt State University====
+=====Santa Barbara Botanic Garden (SBBG)=====
-Michael R. Mesler, (PI), Humboldt State University [http://www.nsf.gov/awardsearch/showAward?AWD_ID=1802185 (NSF Award #1802185)]<br>
+Matt Guilliams, (PI) Santa Barbara Botanic Garden [http://www.nsf.gov/awardsearch/showAward?AWD_ID=1802176 (NSF Award #1802176)]<br>
-Robin Bencie, collections manager
+Lucie Gimmel, herbarium curatorial assistant <br>
+Kristen Lehman, laboratory manager
-====San Diego Natural History Museum====
+=====San Diego Natural History Museum (SD)=====
 Layla Aerne Haines, (PI), San Diego Natural History Museum [http://www.nsf.gov/awardsearch/showAward?AWD_ID=1802186 (NSF Award #1802186)]<br>
 Jon Rebman, (co-PI), San Diego Natural History Museum <br>
-====California State University, Los Angeles====
+=====San Diego State University (SDSU)=====
-Kirsten Fisher, (PI), California State University, Los Angeles [http://www.nsf.gov/awardsearch/showAward?AWD_ID=1802191 (NSF Award #1802191)]<br>
+Michael G. Simpson, (PI), San Diego State University [http://www.nsf.gov/awardsearch/showAward?AWD_ID=1802180 (NSF Award #1802180)]<br>
+Lluvia Flores-Renteria (Co-PI), San Diego State University <br>
-====California State University, Long Beach====
+=====California State University, Northridge (SFV)=====
-Amanda E. Fisher, (PI),California State University, Long Beach [http://www.nsf.gov/awardsearch/showAward?AWD_ID=1802192 (NSF Award #1802192)]<br>
-====California State University, Northridge====
 Paul S. Wilson, (PI), California State University, Northridge [http://www.nsf.gov/awardsearch/showAward?AWD_ID=1802194 (NSF Award #1802194)]<br>
+Jim Hogue, database manager
-====University of California - Los Angeles====
+=====San Jose State University (SJSU)=====
-Philip Rundel, (PI), University of California - Los Angeles [http://www.nsf.gov/awardsearch/showAward?AWD_ID=1802199 (NSF Award #1802199)]<br>
+Benjamin Carter, (PI), San Jose State University [http://www.nsf.gov/awardsearch/showAward?AWD_ID=1802177 (NSF Award #1802177)]<br>
-Thomas Huggins, herbarium coordinator
+Lars Rosengreen, herbarium curator
-====California State University, Fullerton====
+=====University of California - Riverside (UCR)=====
-Joshua P. Der, (PI), California State University, Fullerton [http://www.nsf.gov/awardsearch/showAward?AWD_ID=1802200 (NSF Award #1802200)]<br>
+Amy Litt, (PI), University of California - Riverside [http://www.nsf.gov/awardsearch/showAward?AWD_ID=1802188 (NSF Award #1802188)]<br>
-Jochen Schenk, (Co-PI), California State University, Fullerton <br>
+Andy Sanders, curator
-====University of California - Davis====
+=====University of California - Santa Cruz (UCSC)=====
-Daniel Potter, (PI), University of California - Davis [http://www.nsf.gov/awardsearch/showAward?AWD_ID=1802203 (NSF Award #1802203)]<br>
+Karen Holl, (PI), University of California - Santa Cruz <br>
-Teri Barry, collections manager
+Al Keuter, herbarium manager <br>
+Chris Lay, curator, Kenneth Norris Center for Natural History <br>
-====University of California - Irvine====
+==== Unfunded participants ====
-Peter A. Bowler, (PI), University of California - Irvine [http://www.nsf.gov/awardsearch/showAward?AWD_ID=1802312 (NSF Award #1802312)]<br>
-Rebecca Crowe, nursery manager
-====University of California - Riverside====
+=====San Francisco State University (SFSU)=====
-Amy Litt, (PI), University of California - Riverside [http://www.nsf.gov/awardsearch/showAward?AWD_ID=1802188 (NSF Award #1802188)]<br>
+Jason Cantley, assistant professor
-====University of California - Santa Cruz====
+=====California State University, Stanislaus (SHTC)=====
-Karen Holl, (PI), University of California - Santa Cruz
+Andrew Gardner, assistant professor of botany
-Al Keuter, herbarium manager
-Ken Kellman
 === Protocols & Workflows ===
+Detailed protocols, workflows, and other documentation can be found on the project website: http://www.capturingcaliforniasflowers.org
 === Publications ===
+Alexander, Jason A. (2019). Upcoming changes in the Consortium of California Herbaria, ''Madroño'', ''66''(1), 37-38. https://doi.org/10.3120/0024-9637-66.1.37<br>
+Lorieul, Titouan, Pearson, Katelin D., Ellwood, Elizabeth R., Goëau, Hervé, Molino, Jean-Francois, Sweeney, Patrick W., Yost, Jennifer M., Sachs, Joel, Mata-Montero, Erick, Nelson, Gil, Soltis, Pamela S. & Bonnet, Pierre (2019). Toward a large-scale and deep phenological stage annotation of herbarium specimens: Case studies from temperate, tropical, and equatorial floras, Applications in Plant Sciences,7(3), e01233. https://doi.org/10.1002/aps3.1233<br>
 === Professional Presentations ===
+PM = project manager
+PI = principal investigator
+Olmeda BL [undergraduate], Cuadra S [undergraduate], Barnett A [undergraduate], Rice M [undergraduate], Fisher AE [PI]. Capturing California’s Flowers at the Beach: Herbarium Specimen Imaging at Long Beach State (LOB). Poster to be presented at Botany, July 2019, Tucson, Arizona.
+McGowan H [undergraduate], Fisher AE [PI]. A Flora of the Chiquito Basin, Santa Ana Mountains, Peninsular Ranges of Southern California. Poster to be presented at Botany, July 2019, Tucson, Arizona.
+Pearson KD [PM], Yost JM [PI]. 2019. Capturing flowering time data from herbarium specimens: The California Phenology TCN. Poster presented at: Southern California Botanists Symposium; 2018 November 8; Claremont, CA. Presented by Katie Pearson [PM].
+Pearson KD [PM], Yost JM [PI]. Capturing flowering time data from herbarium specimens: The California Phenology TCN. Poster presented at: Digital Data in Biodiversity Research Conference; 2019 June 11; New Haven, CT. Presented by Katie Pearson [PM].
+Pearson KD [PM], Yost JM [PI]. Capturing flowering time data from herbarium specimens: The California Phenology TCN. Poster presented at: Botanical Society of America (Botany) 2019; 2019 July 30; Tucson, AZ. Presented by Katie Pearson [PM].
+Pearson KD [PM], Yost JM [PI]. Capturing flowering time data from herbarium specimens: The California Phenology TCN. Poster presented at: California Botanical Society Graduate Student Symposium; 2019 April 6; San Luis Obispo, CA. Presented by Annie Ayers [undergraduate].
+Tang K [undergraduate], Fisher AE [PI]. A Visual Guide and Morphometric Analysis of Leaf Shapes of Common Shrubs of the Santa Ana Mountains of Southern California. Poster to be presented at Botany, July 2019, Tucson, Arizona.
 === Other project documentation ===