Genetic Diversity Indicator Challenge
By ISSI’s Team “Genes from Space”
Oliver Selmoni
Please use this QR code to access stage 1 survey while you wait for the meeting to start (ENG)
Genetic Diversity Indicator Challenge
By ISSI’s Team “Genes from Space”
Oliver Selmoni
Please use this QR code to access stage 1 survey while you wait for the meeting to start (SPANISH)
Code of conduct
Full code of conduct: https://www.issibern.ch/code-of-conduct/
We value your active participation and feedback!
Meet the team!
Look for us in the chat! Our name starts with 00_name(institution)
Aims of this workshop
After today, we will incorporate your feedback and lead further discussions. The results of this workshop will become a joint publication to which you would be invited (details at the end) and improvement of the tool.
Data, tool and participation expectations
Thank you for helping us to build a community resource!
Four first mentimeter questions (participant info, prior knowledge)
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1992
2022
KM GBF CBD
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1992
2022
KM GBF CBD
Genes from Space
KM GBF and genetic diversity
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“maintain and restore genetic diversity within and between populations to maintain adaptive potential”
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ADN
gen
INDIVIDUOS
POPOLATIONS
SPECIES
ECOSYSTEMS
alelos: variantes �distintas de un mismo gen
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DNA
gene
Individuals
Populations
SPECIES
ECOSYSTEMS
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maintained populations = 2/3
Does it exist anymore?
Ne > 500
Ne<500
Lost
X
Populations > Ne = 1/3
Is it conserving genetic diversity?
Population
Earth Observation for monitoring existence and size of habitat
Genetic Diversity Indicator
Year X
Year X+5
Genes from Space
The number of populations that existed 2010-2020 vs. number of populations that still exist.
Proportion of populations
large enough to avoid loss of genetic diversity
How to estimate Ne?
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Sampling of
a population
Ne
Genetic analyses
->
->
With genetic data
Frankham 1995, Palstra & Ruzzante 2008, Frasier & Ruzzante 2012, Frankham et al 2019, Hoban et al 2020, 2021
Ne/Nc ratio e.g. 0.1
all mature individuals
(Nc)
Without genetic data
effective population size
(Ne)
How to estimate Ne?
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Sampling of
a population
Ne
Genetic analyses
->
->
With genetic data
Frankham 1995, Palstra & Ruzzante 2008, Frasier & Ruzzante 2012, Frankham et al 2019, Hoban et al 2020, 2021
Ne/Nc ratio e.g. 0.1
all mature individuals
(Nc)
Without genetic data
effective population size
(Ne)
Genes from Space
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Needs + Challenges: �Data availability on Ne
Data sources
for Ne > 500
indicator
Nc data from point estimates
(e.g. capture recapture study found 3,589 individuals)
Nc data from range estimates
(e.g. “park ranger considers there are more than 5,000 mature individuals by much”)
Ne from genetic studies
Insufficient
data
Genes from Space
Data from Mastretta-Yanes et al. 2024, Multinational evaluation of genetic diversity indicators: doi:10.1111/ele.14461
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Needs + Challenges: �Data availability on Ne
Data sources
for Ne > 500
indicator
Nc data from point estimates
(e.g. capture recapture study found 3,589 individuals)
Nc data from range estimates
(e.g. “park ranger considers there are more than 5,000 mature individuals by much”)
Ne from genetic studies
Insufficient
data
Genes from Space
Data from Mastretta-Yanes et al. 2024, Multinational evaluation of genetic diversity indicators: doi:10.1111/ele.14461
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Genetic Diversity Monitoring:�Penguins in Antarctica
Test your learning!
Picea omorika is endemic to the Balkan Peninsula.There are 14 confirmed sites within Republica Srpska, where adult individuals have been counted. Assuming an Ne/Ne ratio of 0.1 and the following 3 populations. What is the value of the Ne indicator?
Population name | Nc | Ne |
Veliki Stolac | 3,000 | |
Karaula Štula | 100 | |
Gostilja | 1,000 | |
https://threatenedconifers.rbge.org.uk/conifers/picea-omorika
0/3
2/3
1/3
Mentimeter question (Ne indicator for for P. omorika)
Test your learning!
Picea omorika is endemic to the Balkan Peninsula.There are 14 confirmed sites within Republica Srpska, where adult individuals have been counted. Assuming an Ne/Ne ratio of 0.1 and the following 3 populations. What is the value of the Ne indicator?
Population name | Nc | Ne |
Veliki Stolac | 3,000 | 300 |
Karaula Štula | 100 | 10 |
Gostilja | 1,000 | 100 |
https://threatenedconifers.rbge.org.uk/conifers/picea-omorika
< 500
< 500
< 500
Ne indicator = 0/3
0/3
The Genes from Space monitoring tool
The Genes from Space monitoring tool
species of interest:
Persea cinerascens
country of interest:
Mexico
User chooses species and geographical area of interest
STEP 1)
The Genes from Space monitoring tool
species of interest:
Persea cinerascens
country of interest:
Mexico
Upload species occurrence coordinates
area of interest
STEP 2)
User chooses species and geographical area of interest
STEP 1)
species occurrences
The Genes from Space monitoring tool
species of interest:
Persea cinerascens
country of interest:
Mexico
Upload species occurrence coordinates
area of interest
area of interest
STEP 2)
User chooses species and geographical area of interest
STEP 1)
Or use GBIF coordinates
species occurrences
species occurrences
The Genes from Space monitoring tool
species occurrences
species of interest:
Persea cinerascens
country of interest:
Mexico
Upload species occurrence coordinates
area of interest
STEP 3)
species occurrences
area of interest
Or use GBIF coordinates
pop1
pop2
pop3
User sets parameters
- Observation distance �(i.e. home range size)
- Population distance �(i.e. the distance between points that are merged into a population)
area of interest
STEP 2)
User chooses species and geographical area of interest
STEP 1)
The Genes from Space monitoring tool
User chooses satellite-based dataset
STEP 4)
Habitat change data
The Genes from Space monitoring tool
Choosing habitat change over time (Step 4)
Global forest watch: tree cover loss, 2000-2023
ESA CCI land cover : land cover change, 1992-2020
30m pixel resolution, once per year
300m pixel resolution, once per year
Not available for the demo today due to computational load (high resolution) – available from tomorrow!
The Genes from Space monitoring tool
Habitat change data
Baseline Year and Interval �(e.g. 10 years)
User sets the baseline
year and increments
STEP 5)
Habitat change data
User chooses satellite-based dataset
STEP 4)
The Genes from Space monitoring tool
Habitat change data
Baseline Year and Interval �(e.g. 10 years)
User sets the baseline
year and increments
STEP 5)
Habitat change data
User chooses satellite-based dataset
STEP 4)
a) User sets the Ne/Nc ratio �b) User sets the density
STEP 6)
Ne/Nc
Density
Ne<500
PM
Schuman, Roeoesli et al. (preprint), Leveraging Earth Observation to monitor genetic diversity from Space, doi:10.32942/X2RS58
Advantages
Of assessing genetic indicators from space
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Limitations
Of assessing genetic indicators from space
🡪 Still in pilot phase
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Group check in!
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Tool demonstration
Species: Nasalis larvatus
Region: Borneo, Malaysia
Home range: ~ 10 km
Population distance: ~ hundreds of km
Habitat type: forest
Ratio between Census and Effective Populations Size: Unknown
Population density: very low (a few individuals per km2)
We are not familiar with this species. We chose it solely because the region is known for its high deforestation rates and we are initiating a collaboration with local NGOs. We want to approach this with respect and awareness, acknowledging our position as outsiders to this context.
The “Genes from Space” tool: You try!
Next you will:
Document and share your experience.
We are here to help!
Breakout Rooms
Please choose a Zoom breakout room according to the languages that can be supported by your hosts:
1. English/German (Isa & Sean)
2. English/Italian/German (Cristiano & Merry & Ghassem)
3. English/French/German (Claudia & Linda & Debbie)
4. Spanish (Santiago & Wolke)
5. Spanish (Alicia)
Feedback & wrap-up
Please return to Mentimeter (slide)
Last two Mentimeter questions (outcome, feelings)
What’s next?
You are asked to perform more runs with the tool - keep the links!
2. We will incorporate your feedback regarding technical issues
3. We will schedule further meetings to discuss the effectiveness, limitations and trustworthiness of the Genes from Space approach.
4. The results of this workshop will become a joint publication to which you will be invited.
5. If the approach is successful and after further testing, we will be back in touch with guidelines for use of the tool for reporting.
Requirements to participate in the publication
AND
https://www.flickr.com/photos/wwworks/
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