Biology and Management of the Salt Marsh Harvest Mouse

Biology and Management of the Salt Marsh Harvest Mouse program image

A series of 4 online sessions with the goal of improving understanding of the biology, ecology, and management of the endangered Salt Marsh Harvest Mouse.


Photo credit: Judy Irving (c) Pelican Media

Day 1

Thursday, May 26, 2022
10:00 AM - 12:00 PM
Virtual Training

Lunch is not needed

Day 2

Thursday, June 2, 2022
10:00 AM - 12:00 PM
Virtual Training

Lunch is not needed

Day 3

Thursday, June 9, 2022
10:00 AM - 12:00 PM
Virtual Training

Lunch is not needed

Day 4

Thursday, June 16, 2022
10:00 AM - 12:00 PM
Virtual Training

Lunch is not needed

COST: $50.00
Payable by check to Elkhorn Slough Foundation
Payable by credit card (online)


Instructor Information

Marisa Ishimatsu
Compliance Monitoring Team Lead
WRA, Inc.

Dr. Katie Smith
Wildlife Biologist
WRA, Inc.

Patricia Valcarcel
Regulatory Program Director
WRA, Inc.


Grant Lyon



See also: Salt Marsh Harvest Mouse, Habitat Restoration

The salt marsh harvest mouse (Reithrodontomys raviventris) is an endangered species endemic to the San Francisco Bay Area. Dr. Katie Smith, along with her colleagues Tricia Valcarcel and Marisa Ishimatsu, will present 4 webinar presentations to improve understanding of the biology, ecology, and management of the endangered salt marsh harvest mouse. Katie, who works for WRA, has studied the salt marsh harvest mouse extensively and received her Ph.D. from UC Davis.

This workshop is being jointly offered by the Coastal Training Programs of the Elkhorn Slough and San Francisco Bay National Estuarine Research Reserves.

Session Topicshttps://zirkonyumfiyat.com.tr

Sessions will feature local experts, including researchers and consultants who are actively engaged with SMHM, and will cover:
(1) Basic biology and ecology, including taxonomy, identification, life cycle & population dynamics, adaptations, diet, habitat use, and distribution
(2) Threats and management, including habitat degradation and loss, wildfires, flooding, and predators
(3) Regulatory issues, including "take" under the federal and state ESA, California Fully Protected Species, Section 7 Biological Assessments, Section 10 HCPs, and California Incidental Take Permits
(4) Monitoring methods and compliance
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We also hope to follow this virtual series with in-person field trip opportunities, possibly later this Fall, to help people identify potential habitat and possibly observe some SMHM trapping.
Workshop Format
Series of four weekly ~2-hour webinar presentations (10am-12pm), followed by optional, informal virtual brown bag lunch hours for extended Q&A with the experts.
The registration fee of $50 covers registration to the whole series.

*Very Important*

It is important to note that no component of this workshop should be construed to apply to attendee’s ability to obtain permits for salt marsh harvest mouse; if you are interested in how workshop activities might be used for permitting, you are encouraged to contact your agency permitting representative.



Payment Deadline and Registration Details


5 pm, May 19 is the deadline for both payment and registration. 


We do not allow 3rd party registration - please do not register anyone but yourself. Registration is email sensitive; registering others frequently results in cancellation, missed communication, and other issues.


If you cancel prior to May 19, 5 pm., we will refund any registration fees. Although we cannot refund registration fees after this date, please let us know as soon as possible if you cannot attend, so we can allow others the opportunity to register. You cannot transfer your registration to another person, even in your own organization. Your help with these guidelines makes it possible for these workshops to be offered as fairly and affordably as possible.


We reserve the right to cancel or postpone this event should we receive insufficient registration by May 19; in that event, we will remit full refunds.



Documents and Publications

Contact List
We encourage participants to download the contact list to assist with arranging a rideshare or to get in contact with someone you met at the workshop. Those interested in sharing a ride to the event are marked on the contact list.

Handout: Mouse Body Condition Scale

Handout: Percent Cover Diagrams

Phase 3 Field Guide - Vegetation Diversity and Structure
April 2001
Handout: Rodent Measuring Methods
Ingles, L

Handout: Small Mammal Hair Clipping Guide

Handout: SMHM Workgroup Field Data Sheet
PDF, 346KB

Poster: Managing the Salt Marsh Harvest Mouse in the Built Environment
PDF, 2.2MB
Smith, KR, L Barthman-Thompson, S Estrella, and MK Riley

Poster: Novel Insights into the Diet of the Salt Marsh Harvest Mouse
PDF, 8.3MB
Edgerton, EM, and CR Rose

Poster: Predators of the Salt Marsh Harvest Mouse in the Suisun Marsh
PDF, 3.7MB
Smith, KR, MK Riley, C Angulo, S Fresquez, M Smith, S Trombley, and M Zhang

Poster: Salt Marsh Harvest Mouse Nest Variation: Potential to Adapt to Rising Sea Levels
PDF, 2.2MB
Trombley, S

Poster: Salt Marsh Harvest Mouse Summary
PDF, 4.2MB
Smith, KR

Poster: Salt Marsh Harvest Mouse Survey Bias at China Camp State Park
PDF, 1.1MB
Barthman-Thompson, L

Conservation genetics of the endangered San Francisco Bay endemic salt marsh harvest mouse (Reithrodontomys raviventris)
PDF, 929KB
Statham, MJ, S Aamoth, L Barthman-Thompson, S Estrella, S Fresquez, LD Hernandez, R Tertes, and BN Sacks
Conservation Genetics 17(5): 1055-1066
Development of a morphological key for the southern salt marsh harvest mouse using genetically verified individuals
PDF, 1.3MB
Statham, Mark J., L Barthman-Thompson, S. Fresquez, and B.N. Sacks
California Fish and Wildlife Special CESA Issue:367-381
Distinguishing between northern salt marsh and western harvest mice
PDF, 543KB
Sustaita, D, SK Brown, L Barthman-Thompson, S Estrella, L Patterson, PQ Finfrock, and FX Villablanca
The Journal of Wildlife Management 82(4): 723-733
May 2018
Effects of natural and anthropogenic change on habitat use and movement of endangered salt marsh harvest mice
PDF, 1.3MB
Smith, KR, L Barthman-Thompson, WR Gould, and KE Mabry
PLoS ONE 9(10): e108739
October 2014
Habitat selection of the salt marsh harvest mouse and sympatric rodent species
PDF, 663KB
Bias, MA, and ML Morrison
Journal of Wildlife Management 70(3): 732-742
Of mice and mallards: positive indirect effects of coexisting prey on waterfowl nest success
PDF, 1.8MB
Ackerman, JT
OIKOS 99(3): 469-480
December 2002
Potential evidence of communal nesting, mate guarding, or biparental care in the salt marsh harvest mouse (Reithrodontomys raviventris halicoetes)
PDF, 2.2MB
Trombley, S, and KR Smith
California Fish and Game 103(1): 15-20
Salt marsh harvest mice, urban development, and rising sea levels
PDF, 1.1MB
Shellhammer, HS
Conservation Biology 3(1): 59-65
Salt marsh harvest mouse demography and habitat use in the Suisun Marsh, California
PDF, 167KB
Sustaita, D, P Finfrock Quickert, L Patterson, L Barthman-Thompson, and S Estrella
The Journal of Wildlife Management 75(6): 1498-1507
July 2011
The selfie trap: A novel camera trap design for accurate small mammal identification
PDF, 212KB
Gracanin, A, V Gracanin, and KM Mikac
Ecological Management & Restoration 20(2): 156-158
Threat of hantavirus pulmonary syndrome to field biologists working with small mammals
JPG, 239KB
Kelt, DA, DH Van Vuren, MS Hafner, BJ Danielson, and MJ Kelly
Emerging Infectious Diseases 13(9): 1285-1287
Toward salt marsh harvest mouse recovery: A review
Smith, KR, MK Riley, L Barthman–Thompson, I Woo, MJ Statham, S Estrella, and DA Kelt
San Francisco Estuary and Water Science,16(2): 2
Toward salt marsh harvest mouse recovery: Research priorities
PDF, 189KB
Smith, KR, MK Riley, L Barthman–Thompson, MJ Statham, S Estrella, and D Kelt
San Francisco Estuary and Water Science 16(2): 1
Updated guidelines for protection of mammalogists and wildlife researchers from hantavirus pulmonary syndrome (HPS)
JPG, 255KB
Kelt, DA, MS Hafner, and the American Society of Mammalogists
Journal of Mammology 91(6): 1524-1527
Use of brackish marshes in the South San Francisco Bay by salt marsh harvest mice
PDF, 232KB
Shellhammer, H, R Duke, and MC Orland
California Fish and Game 96(4): 256-259
Waterfowl management and diet of the salt marsh harvest mouse
PDF, 1.3MB
Smith, KR, and DA Kelt
The Journal of Wildlife Management 1-13
September 2019
Data collection protocols surveying for the salt marsh harvest mouse (Reithrodontomys raviventris), California vole (Microtus californicus) and other small mammals
PDF, 173KB
Padgett-Flohr, GE, and H Shellhammer
Wetlands Regional Monitoring Program Plan
Guidance Document - Minimum Qualifications
PDF, 390KB
United States Fish and Wildlife Service
Hantavirus Pulmonary Syndrome Fact Sheet
PDF, 205KB
Center for Disease Control
Key to Vegetation in Suisun Marsh
DOC, 185KB

Minimum qualifications for the salt marsh harvest mouse

Parakeet Mix

Physician Alert Card
PDF, 126KB

California Department of Fish and Wildlife
Poem: What a wondrous experience
Shellhamer, H

Preventing Hantavirus Pulmonary Syndrom in the Workplace
PDF, 4.9MB

California Department of Public Health
Rodents and Hantavirus Poster
PDF, 1.3MB

Salt marsh harvest mouse abundance and site use in a managed marsh
PDF, 740KB
Basson, G
San Jose State University Master's Thesis
Selected Tidal Marsh Plant Species of the San Francisco Estuary: A Field Identification Guide
PDF, 2.2MB
Baye, P
San Francisco Estuary Invasive Spartina Project
March 2007
Small Mammal Survey Codes

Suggested SMHM Survey Equipment List

March 2017
USFWS Field Office Permit Contact
PDF, 521KB
United States Fish and Wildlife Service
Walking in the Marsh: Methods to Increase Safety and Reduce Impacts to Wildlife/Plants


Salt Marsh Harvest Mouse

Salt Marsh Harvest Mouse Symposium 2017 documents

Questions and Answers

Submit a question on this subject and we'll provide an answer. coastaltraining@elkhornslough.org