Data Package Metadata View Summary

Mark-recapture data of the Northern Spring Salamander (Gyrinophilus porphyriticus), Hubbard Brook Experimental Forest, 2012 – present

General Information

Data Package:

Local Identifier:

knb-lter-hbr.144.5

Title:

Mark-recapture data of the Northern Spring Salamander (Gyrinophilus porphyriticus), Hubbard Brook Experimental Forest, 2012 – present

Alternate Identifier:

DOI PLACE HOLDER

Abstract:

This data set includes spatially explicit mark-recapture data of the Northern Spring Salamander (Gyrinophilus porphyriticus) collected during the summer months (June – August) from downstream and upstream reaches in multiple streams in the Hubbard Brook Experimental Forest. Downstream reaches begin at the confluence with the Main Hubbard and extend upstream 500 meters and upstream reaches begin at the weir and extend downstream 500 meters. Downstream reaches contain brook trout and upstream reaches do not. We used a robust design framework with approximately 9 surveys per reach each summer (3 primary occasions with 3 secondary occasions each). Salamanders were captured by hand and marked with either Visual Implant Elastomer and/or a PIT tag.

These data were gathered as part of the Hubbard Brook Ecosystem Study (HBES). The HBES is a collaborative effort at the Hubbard Brook Experimental Forest, which is operated and maintained by the USDA Forest Service, Northern Research Station.

These data have been published in the following papers:

Lowe WH, Addis BR, Smith MR, Davenport JM. The spatial structure of variation in salamander survival, body condition and morphology in a headwater stream network. Freshwater Biol. 2018;63:1287–1299. https://doi.org/10.1111/fwb.13133

Lowe, W. H., and Addis, B. R.. 2019. Matching habitat choice and plasticity contribute to phenotype–environment covariation in a stream salamander. Ecology 100( 5):e02661. 10.1002/ecy.2661

Lowe, W.H., et al. Hydrologic variability contributes to reduced survival through metamorphosis in a stream salamander. Proceedings of the National Academy of Sciences 2019; 116.39: 19563-19570.

Bryant, A.R., Gabor, C.R., Swartz, L.K., Wagner, R., Cochrane, M.M., Lowe, W.H. Differences in corticosterone release rates of larval Spring Salamanders (Gyrinophilus porphyriticus) in response to native fish presence. Biology 2022; 11.484. https://doi.org/10.3390/biology11040484

Addis, B.R., and W.H. Lowe. Environmentally associated variation in dispersal distance affects inbreeding risk in a stream salamander." The American Naturalist 2022.

Publication Date:

2022-08-30

For more information:
Visit:	DOI PLACE HOLDER

Time Period

Begin:

2012-06-20

End:

2021-08-31

People and Organizations
Contact:	Hubbard Brook Ecosystem Study [ email ]
Creator:	Lowe, Winsor H (University of Montana)
Associate:	Addis, Brett R (University of Montana, associatedParty)
Associate:	Davenport, Jon M (Appalachian Staate Univerity, associatedParty)
Associate:	Swartz, Leah K (University of Montana, associatedParty)
Associate:	Cochrane, Madaline (University of Montana, associatedParty)

Data Entities
Data Table Name:	HubbardBrook_SalamanderCaptureRecapture
Description:	Capture-mark-recapture data for Hubbard Brook salamanders
Data Table Name:	HubbardBrook_SalamanderSurveyCovariates
Description:	Survey Details

Detailed Metadata

Data Entities

Data Table


Data:	https://pasta-s.lternet.edu/package/data/eml/knb-lter-hbr/144/5/ad0c647fa3920058ae1fe0f2432c05d7
Name:	HubbardBrook_SalamanderCaptureRecapture
Description:	Capture-mark-recapture data for Hubbard Brook salamanders
Number of Records:	7021
Number of Columns:	27

Table Structure

Object Name:

HubbardBrook_SalamanderCaptureRecapture.csv

Size:

885791 bytes

Authentication:

823aaf1eeee199f7f9270867df53faf3 Calculated By MD5

Text Format:

Number of Header Lines:

Record Delimiter:

\r\n

Orientation:

column

Simple Delimited:

Field Delimiter:	,
Quote Character:	"

Table Column Descriptions

Column Name:

ElastomerID

PITTagID

Date

SurNum

Primary

OldNew

Species

Sex

Stage

Stream

Reach

Meso

LatLoc

LongLoc

SubSize

SubType

MassMg

TailRemoved

TailRegrown

SVL

HeadLength

HeadWidth

TrunkLength

TrunkWidth

HumerousLength

FemurLength

Notes

Definition:

Visual Implant Elastomer ID

PIT tag ID

Date when salamander was captured

Site specific survey number

Primary occasion number

Indicates whether animal is a recapture (old) or new individual (new)

Species of salamanader

Sex of salamander

Developmental stage of salamander

Stream where salamander was captured (Bear, Paradise, ZigZag, Cascade, Canyon)

Reach where salamander was captured

Meso-habitat where salamander was captured

Lateral location where salamander was captured in stream

Location along stream reach where salamander was captured (meters from bottom end of reach)

Substrate size under which salamander was captured (length longest dimension)

Substrate type under which salamander was captured

Mass of salamander

% of tail missing

% of tail regrown

Snout-to-vent length

Head length

Head width

Trunk length

Trunk width

Humerous length

Femur length

Comments/ notes

Storage Type:

string

date

string

float

string

float

string

Measurement Type:

nominal

dateTime

nominal

ratio

nominal

ratio

nominal

Measurement Values Domain:

Definition

Visual Implant Elastomer ID

Definition

PIT tag ID

Format	YYYY-MM-DD
Precision

Definition

Site specific survey number

Definition

Primary occasion number

Allowed Values and Definitions

Enumerated Domain

Code Definition

Code	N
Definition	new individual
Source

Code Definition

Code	O
Definition	recapture
Source

Allowed Values and Definitions

Enumerated Domain

Code Definition

Code	GP
Definition	Gyrinophilus porphyriticus
Source

Allowed Values and Definitions

Enumerated Domain

Code Definition

Code	F
Definition	Female
Source

Code Definition

Code	M
Definition	Male
Source

Code Definition

Code	U
Definition	Unknown
Source

Allowed Values and Definitions

Enumerated Domain

Code Definition

Code	A
Definition	Adult
Source

Code Definition

Code	L
Definition	Larva
Source

Code Definition

Code	M
Definition	Metamorph
Source

Allowed Values and Definitions

Enumerated Domain

Code Definition

Code	Bear
Definition	Bear Brook
Source

Code Definition

Code	Canyon
Definition	Canyon Brook
Source

Code Definition

Code	Cascade
Definition	Cascade Brook
Source

Code Definition

Code	Paradise
Definition	Paradise Brook
Source

Code Definition

Code	ZigZag
Definition	ZigZag Brook
Source

Allowed Values and Definitions

Enumerated Domain

Code Definition

Code	lower
Definition	downstream
Source

Code Definition

Code	upper
Definition	upstream
Source

Allowed Values and Definitions

Enumerated Domain

Code Definition

Code	RF
Definition	riffle
Source

Code Definition

Code	PL
Definition	pool
Source

Code Definition

Code	CA
Definition	cascate
Source

Code Definition

Code	RN
Definition	run
Source

Allowed Values and Definitions

Enumerated Domain

Code Definition

Code	T
Definition	Deepest portion of the stream
Source

Code Definition

Code	WE
Definition	Shallow portion of the stream close to shore
Source

Code Definition

Code	DE
Definition	Dry or damp bank of the stream
Source

Code Definition

Code	WI
Definition	Definition Pending
Source

Unit	meter
Type	real
Min	0
Max	1500

Unit	millimeter
Type	whole
Min	0
Max	1200

Allowed Values and Definitions

Enumerated Domain

Code Definition

Code	R
Definition	rock
Source

Code Definition

Code	W
Definition	recapture
Source

Unit	milligram
Type	natural
Min	200
Max	26000

Unit	dimensionless
Type	whole
Min	0
Max	100

Unit	dimensionless
Type	real
Min	0
Max	95

Unit	millimeter
Type	real
Min	22.09
Max	116.63

Unit	millimeter
Type	real
Min	5.84
Max	33.79

Unit	millimeter
Type	real
Min	4.23
Max	19.31

Unit	millimeter
Type	real
Min	13.32
Max	80.54

Unit	millimeter
Type	real
Min	3.11
Max	20.33

Unit	millimeter
Type	real
Min	1.07
Max	8.268

Unit	millimeter
Type	real
Min	1.07
Max	10.07

Definition

Comments/ notes

Missing Value Code:

Code	NA
Expl	Missing information

Code	NA
Expl	Missing information

Code	NA
Expl	Missing information

Code	NA
Expl	Missing information

Code	NA
Expl	Missing information

Code	NA
Expl	Missing information

Code	NA
Expl	Missing information

Code	NA
Expl	Missing information

Code	NA
Expl	Missing information

Code	NA
Expl	Missing information

Code	NA
Expl	Missing information

Code	NA
Expl	Missing information

Code	NA
Expl	Missing information

Code	NA
Expl	Missing information

Code	NA
Expl	Missing information

Code	NA
Expl	Missing information

Code	NA
Expl	Missing information

Code	NA
Expl	Missing information

Code	NA
Expl	Missing information

Code	NA
Expl	Missing information

Code	NA
Expl	Missing information

Code	NA
Expl	Missing information

Code	NA
Expl	Missing information

Code	NA
Expl	Missing information

Code	NA
Expl	No note

Accuracy Report:

Accuracy Assessment:

Coverage:

Methods:

Data Table


Data:	https://pasta-s.lternet.edu/package/data/eml/knb-lter-hbr/144/5/e48127b2f0d1a36ab4803770cdba395b
Name:	HubbardBrook_SalamanderSurveyCovariates
Description:	Survey Details
Number of Records:	548
Number of Columns:	11

Table Structure

Object Name:

HubbardBrook_SalamanderSurveyCovariates.csv

Size:

50914 bytes

Authentication:

30d96afab6852c52c94808ba36f036b7 Calculated By MD5

Text Format:

Number of Header Lines:

Record Delimiter:

\r\n

Orientation:

column

Simple Delimited:

Field Delimiter:	,
Quote Character:	"

Table Column Descriptions

Column Name:

Stream

Reach

Date

SurNum

Weather

StartTime

EndTime

Worker1

Worker2

Worker3

Comments

Definition:

Stream where salamander was captured (Bear, Paradise, ZigZag, Cascade, Canyon)

Reach where salamander was captured

Date when salamander was captured

Site specific survey number

Weather during survey

Time survey started

Time survey ended

Initials of surveyer 1

Initials of surveyer 2

Initials of surveyer 3

General survey comments

Storage Type:

string

date

string

date

string

Measurement Type:

nominal

dateTime

nominal

dateTime

nominal

Measurement Values Domain:

Allowed Values and Definitions

Enumerated Domain

Code Definition

Code	Bear
Definition	Bear Brook
Source

Code Definition

Code	Paradise
Definition	Paradise Brook
Source

Code Definition

Code	ZigZag
Definition	ZigZag Brook
Source

Allowed Values and Definitions

Enumerated Domain

Code Definition

Code	lower
Definition	downstream
Source

Code Definition

Code	upper
Definition	upstream
Source

Format	YYYY-MM-DD
Precision

Definition

Site specific survey number

Allowed Values and Definitions

Enumerated Domain

Code Definition

Code	Partly cloudy
Definition	Partly cloudy
Source

Code Definition

Code	Overcast
Definition	Overcast
Source

Code Definition

Code	Sunny
Definition	Sunny
Source

Code Definition

Code	Rain
Definition	Rain
Source

Format	hh:mm
Precision

Format	hh:mm
Precision

Definition

Initials of surveyer 1

Definition

Initials of surveyer 2

Definition

Initials of surveyer 3

Definition

General survey comments

Missing Value Code:

Accuracy Report:

Accuracy Assessment:

Coverage:

Methods:

Data Package Usage Rights

This information is released under the Creative Commons license - Attribution - CC BY (https://creativecommons.org/licenses/by/4.0/). The consumer of these data ("Data User" herein) is required to cite it appropriately in any publication that results from its use. The Data User should realize that these data may be actively used by others for ongoing research and that coordination may be necessary to prevent duplicate publication. The Data User is urged to contact the authors of these data if any questions about methodology or results occur. Where appropriate, the Data User is encouraged to consider collaboration or co-authorship with the authors. The Data User should realize that misinterpretation of data may occur if used out of context of the original study.

While substantial efforts are made to ensure the accuracy of data and associated documentation, complete accuracy of data sets cannot be guaranteed. All data are made available "as is." The Data User should be aware, however, that data are updated periodically and it is the responsibility of the Data User to check for new versions of the data. The data authors and the repository where these data were obtained shall not be liable for damages resulting from any use or misinterpretation of the data. Thank you.

Keywords

By Thesaurus:
LTER Controlled Vocabulary	ecosystems, forests, watersheds
HBES Vocabulary	HBR, Hubbard Brook LTER, Hubbard Brook Experimental Forest, Hubbard Brook Ecosystem Study, HBES, HBEF, New Hampshire, NH, White Mountain National Forest
ISO 19115 Topic Category	biota, climatologyMeteorologyAtmosphere
National Research & Development Taxonomy	Climate change, Climate change effects, Ecology, Ecosystems, & Environment
Hubbard Brook Ecosystem Study	Gyrinophilus porphyriticus, mark-recapture, headwater streams, salamander
LTER Core Research Areas	populations

Methods and Protocols

These methods, instrumentation and/or protocols apply to all data in this dataset:

Methods and protocols used in the collection of this data package

Description:

Capture–mark–recapture (CMR) surveys were conducted mid-June through mid-September of 2012–2015 and 2018-2021 for three streams (Bear Brook, Paradise Brook, and Zigzag Brook). CMR surveys were conducted for two additional streams (Canyon Brook and Cascade Brook) from 2012-2014. Each stream was divided into two 500‐m‐long reaches (downstream and upstream). Downstream reaches started at the confluence with Hubbard Brook and weirs set the upstream end of the upstream reaches. Each stream was surveyed nine times in each field season. We conducted three surveys of each stream during three two-week periods distributed evenly throughout the field season (i.e. primary number). In each survey, a constant search effort was maintained by turning one cover object per meter of stream length. Salamanders were individually marked with visible implant elastomer from 2012-2015 and 8-mm PIT-tags from 2018-2021, then returned to the same location where they were found (i.e., cover object and meter of stream).

All G. porphyriticus individuals were photographed to quantify body morphology. Animals were placed on a level stage with the camera approximately 20 cm above the stage, which allowed us to photograph the entire dorsal surface of the animal, along with a ruler. The ruler was used to calibrate morphological measurements in mm. We used these photographs to measure head, trunk, and leg morphology, as well as SVL, the standard measure of body size in amphibians. We also recorded the habitat (riffle, pool) where each salamander was captured, based on flow and gradient conditions 0.5 m upstream and downstream of a salamander’s location.

People and Organizations

Publishers:

Organization:

Environmental Data Initiative

Email Address:

info@edirepository.org

Web Address:

https://edirepository.org

Id:

https://ror.org/0330j0z60

Creators:

Individual:

Winsor H Lowe

Organization:

University of Montana

Email Address:

winsor.lowe@umontana.edu

Id:

https://orcid.org/0000-0001-5782-0200

Contacts:

Organization:

Hubbard Brook Ecosystem Study

Email Address:

hbr-im@lternet.edu

Associated Parties:

Individual:

Brett R Addis

Organization:

University of Montana

Email Address:

addisbrett@gmail.com

Id:

https://orcid.org/0000-0002-3794-3200

Role:

associatedParty

Individual:

Jon M Davenport

Organization:

Appalachian Staate Univerity

Email Address:

davenportjm@appstate.edu

Id:

https://orcid.org/0000-0002-9911-2779

Role:

associatedParty

Individual:

Leah K Swartz

Organization:

University of Montana

Email Address:

leah.swartz@mso.umt.edu

Id:

https://orcid.org/0000-0003-2315-8727

Role:

associatedParty

Individual:

Madaline Cochrane

Organization:

University of Montana

Email Address:

Madaline.cochrane@umontana.edu

Id:

https://orcid.org/0000-0003-1080-8495

Role:

associatedParty

Temporal, Geographic and Taxonomic Coverage

Temporal, Geographic and/or Taxonomic information that applies to all data in this dataset:

Time Period

Begin:

2012-06-20

End:

2021-08-31

Geographic Region:

Description:

Hubbard Brook Experimental Forest in central New Hampshire, USA. Bear, Canyon, Cascade, Paradise, and Zigzag Brooks are hydrologically independent and flow into the Main Hubbard.

Bounding Coordinates:

Northern:	43.914	Southern:	43.959
Western:	-71.8062	Eastern:	-71.70022

Taxonomic Range:

Classification:

Rank Name:

kingdom

Rank Value:

Animalia

Identifer:

https://gbif.org
ID: 1

Classification:

Rank Name:

phylum

Rank Value:

Chordata

Identifer:

https://gbif.org
ID: 44

Classification:

Rank Name:

class

Rank Value:

Amphibia

Identifer:

https://gbif.org
ID: 131

Classification:

Rank Name:

order

Rank Value:

Caudata

Identifer:

https://gbif.org
ID: 953

Classification:

Rank Name:

family

Rank Value:

Plethodontidae

Identifer:

https://gbif.org
ID: 6748

Classification:

Rank Name:

genus

Rank Value:

Gyrinophilus

Identifer:

https://gbif.org
ID: 2431422

Classification:

Rank Name:	species
Rank Value:	Gyrinophilus porphyriticus
Identifer:	https://gbif.org ID: 2431423

Project

Parent Project Information:

Title:

Long-Term Ecological Research at Hubbard Brook Experimental Forest (1988)

Personnel:

Individual:

Timothy J Fahey

Organization:

Cornell University

Email Address:

tjf5@cornell.edu

Id:

https://orcid.org/0000-0003-1283-1162

Role:

Principal Investigator

Funding:

National Science Foundation (NSF) 8702331

Related Project:

Title:

Long-term Ecological Research (LTER) at the Hubbard Brook Experimental Forest (1992)

Personnel:

Individual:

Timothy J Fahey

Organization:

Cornell University

Email Address:

tjf5@cornell.edu

Id:

https://orcid.org/0000-0003-1283-1162

Role:

Principal Investigator

Funding:

National Science Foundation (NSF) 9211768

Related Project:

Title:

LTER: Hubbard Brook Experimental Forest (1998)

Personnel:

Individual:

Timothy J Fahey

Organization:

Cornell University

Email Address:

tjf5@cornell.edu

Id:

https://orcid.org/0000-0003-1283-1162

Role:

Principal Investigator

Funding:

National Science Foundation (NSF) 9810221

Related Project:

Title:

Long-Term Ecological Research (LTER) at Hubbard Brook Experimental Forest (HBR-LTER) (2005)

Personnel:

Individual:

Timothy J Fahey

Organization:

Cornell University

Email Address:

tjf5@cornell.edu

Id:

https://orcid.org/0000-0003-1283-1162

Role:

Principal Investigator

Funding:

National Science Foundation (NSF) 0423259

Related Project:

Title:

Long-Term Ecological Research at Hubbard Brook Experimental Forest (2010)

Personnel:

Individual:

Timothy J Fahey

Organization:

Cornell University

Email Address:

tjf5@cornell.edu

Id:

https://orcid.org/0000-0003-1283-1162

Role:

Principal Investigator

Funding:

National Science Foundation (NSF) 1114804

Related Project:

Title:

LTER: Long Term Ecological Research at the Hubbard Brook Experimental Forest (2016)

Personnel:

Individual:

Peter M Groffman

Organization:

Cary Institute of Ecosystem Studies

Email Address:

groffmanp@caryinstitute.org

Id:

https://orcid.org/0000-0001-8371-6255

Role:

Principal Investigator

Funding:

National Science Foundation (NSF) 1637685

Related Project:

Title:

Long-Term Ecological Research at the Hubbard Brook Experimental Forest (2016)

Personnel:

Individual:

Gary M Lovett

Organization:

Cary Institute of Ecosystem Studies

Email Address:

lovettg@caryinstitute.org

Id:

https://orcid.org/0000-0002-8411-8027

Role:

Principal Investigator

Funding:

National Science Foundation (NSF) 1633026

Related Project:

Title:

The causes and consequences of variation in dispersal distance

Personnel:

Individual:

Winsor H Lowe

Organization:

University of Montana

Email Address:

winsor.lowe@umontana.edu

Id:

https://orcid.org/0000-0001-5782-0200

Role:

Principal Investigator

Funding:

National Science Foundation (NSF) DEB-1655653

Related Project:

Title:

Coexistence in stream metacommunities

Personnel:

Individual:

Winsor H Lowe

Organization:

University of Montana

Email Address:

winsor.lowe@umontana.edu

Id:

https://orcid.org/0000-0001-5782-0200

Role:

Principal Investigator

Funding:

National Science Foundation (NSF) DEB-1050459

Maintenance

Maintenance:

Description:	ongoing
Frequency:

Other Metadata

Copyright 2024 Environmental Data Initiative. This material is based upon work supported by the National Science Foundation under grants #2223103 and #2223104. Any opinions, findings, conclusions, or recommendations expressed in the material are those of the author(s) and do not necessarily reflect the views of the National Science Foundation. Please contact us with questions, comments, or for technical assistance regarding this web site or the Environmental Data Initiative. Please read our privacy policy to know what information we collect about you and to understand your privacy rights.

EDI is a collaboration between the University of New Mexico and the University of Wisconsin – Madison, Center for Limnology:

Data Package Metadata View Summary

Mark-recapture data of the Northern Spring Salamander (Gyrinophilus porphyriticus), Hubbard Brook Experimental Forest, 2012 – present

Data Entities

Data Table

Data Table

Data Package Usage Rights

Keywords

Methods and Protocols

These methods, instrumentation and/or protocols apply to all data in this dataset:

People and Organizations

Temporal, Geographic and Taxonomic Coverage

Project

Parent Project Information:

Maintenance

Recently Added

Recently Updated

Data Package Metadata View Summary

Mark-recapture data of the Northern Spring Salamander (Gyrinophilus porphyriticus), Hubbard Brook Experimental Forest, 2012 – present

+/- Data Entities

Data Table

Data Table

+/- Data Package Usage Rights

+/- Keywords

+/- Methods and Protocols

These methods, instrumentation and/or protocols apply to all data in this dataset:

+/- People and Organizations

+/- Temporal, Geographic and Taxonomic Coverage

+/- Project

Parent Project Information:

+/- Maintenance

Data Entities

Data Package Usage Rights

Keywords

Methods and Protocols

People and Organizations

Temporal, Geographic and Taxonomic Coverage

Project

Maintenance