First congress on epigenetics in marine organisms

1. THE SEAGRASS METHYLOME:
THE SEAGRASS METHYLOME:
FUNCTIONAL ROLE IN CLONAL SHOOTS
FUNCTIONAL ROLE IN CLONAL SHOOTS
2020
2020
Jueterbock A1, Boström C2, Coyer JA1,3, Olsen JL4, Kopp M1, Dhanasiri AKS1, Smolina I1,
Arnaud-Haond S5, Van de Peer Y6,7, Hoarau G1
1: 2: 3: 4:
5: 6: 7: Funding:
1

2. 2 . 1

3. 2 . 2

4. ASEXUAL REPRODUCTION IN FLOWERING PLANTS
ASEXUAL REPRODUCTION IN FLOWERING PLANTS
40% of plants reproduce clonally
coursehero.com
2 . 3

5. >200,000 YEARS OLD SEAGRASS MEADOW
>200,000 YEARS OLD SEAGRASS MEADOW
2 . 4

6. EPIGENETIC VARIATION
EPIGENETIC VARIATION
Allis et al. (2015), Epigenetics
2 . 5

7. WHAT IS THE METHYLOME?
WHAT IS THE METHYLOME?
Zakhari (2013), Alcohol research: current reviews
2 . 6

8. DNA METHYLATION HERITABILITY
DNA METHYLATION HERITABILITY
source: http://www.atdbio.com/content/56/Epigenetics
Epimutation rate ca. 64,000 x genetic mutation rate
Response to environment
2 . 7

9. RESETTING VERSUS MEMORY IN DNA METHYLATION
RESETTING VERSUS MEMORY IN DNA METHYLATION
Crisp et al. (2016), Science Advances
2 . 8

10. HYPOTHESIS
HYPOTHESIS
Variation in DNA methylation creates functional
diversity and explains long-term survival of clonal
seagrass meadows
2 . 9

11. ASEXUAL REPRODUCTION IN SEAGRASS
ASEXUAL REPRODUCTION IN SEAGRASS
Fonseca & Uhrin (2009), Marine Fisheries Review
2 . 10

12. 2 . 11

13. DISTRIBUTION OF
DISTRIBUTION OF ZOSTERAMARINA
ZOSTERAMARINA
From IUCN Red List of Threatened Species. Version 2010.4
2 . 12

14. OBJECTIVES
OBJECTIVES
Characterize DNA methylation variation in a clonal
seagrass meadow
Identify the functional role of this variation
3 . 1

15. OBJECTIVES
OBJECTIVES
Characterize DNA methylation variation in a clonal
seagrass meadow
Identify the functional role of this variation
3 . 1

16. SAMPLING IN THE BALTIC SEA
SAMPLING IN THE BALTIC SEA
>1,000 years old clonal meadows reported
3 . 2

17. SAMPLING LOCATION
SAMPLING LOCATION
40 plants collected along a 250 m transect
39 plants were clones (equal genotype at 7 microsatellite loci)
3 . 3

18. METHYLOME CHARACTERIZATION
METHYLOME CHARACTERIZATION
Wang et al. (2015), Open Biology
3 . 4

19. BASIC RESULTS
BASIC RESULTS
144,420 sites methylated across samples
23% of 628,255 in-silico predicted methylation sites
3 . 5

20. EPIGENETIC DISTANCES
EPIGENETIC DISTANCES
Euclidean distance between shoots in PCA plot
3 . 6

21. CLONES DIFFER STRONGLY IN DNA METHYLATION
CLONES DIFFER STRONGLY IN DNA METHYLATION
3 . 7

22. EPIGENETIC DISTANCE NOT EXPLAINED BY
EPIGENETIC DISTANCE NOT EXPLAINED BY
SHOOT DISTANCE
SHOOT DISTANCE
R=0.01, p=0.71
3 . 8

23. Seagrass clones differ in DNA methylation without
clear spatial pattern
3 . 9

24. OBJECTIVES
OBJECTIVES
Characterize DNA methylation variation in a clonal
seagrass meadow
Identify the functional role of this variation
4 . 1

25. OBJECTIVES
OBJECTIVES
Characterize DNA methylation variation in a clonal
seagrass meadow
Identify the functional role of this variation
4 . 1

26. HEAT STRESS SIMULATION
HEAT STRESS SIMULATION
10 shoots of the same clone
4 . 2

27. PHYSIOLOGICAL STRESS RESPONSE
PHYSIOLOGICAL STRESS RESPONSE
4 . 3

28. PHYSIOLOGICAL STRESS RESPONSE
PHYSIOLOGICAL STRESS RESPONSE
Performance under control and recovery was positively correlated.
4 . 4

29. METHYLATION PATTERNS CHANGED PERMANENTLY
METHYLATION PATTERNS CHANGED PERMANENTLY
4 . 5

30. STRONG EPIGENETIC STRESS MEMORY
STRONG EPIGENETIC STRESS MEMORY
POTENTIAL FOR HEAT HARDENING?
POTENTIAL FOR HEAT HARDENING?
4 . 6

31. ...OR CONTINUED ACCLIMATION?
...OR CONTINUED ACCLIMATION?
4 . 7

32. THE HEAT-RESPONSE WAS CHARACTERIZED BY
THE HEAT-RESPONSE WAS CHARACTERIZED BY
HYPER-METHYLATION
HYPER-METHYLATION
4 . 8

33. CORRELATION BETWEEN METHYLOME AND PERFORMANCE
CORRELATION BETWEEN METHYLOME AND PERFORMANCE
DIFFERENCES
DIFFERENCES
4 . 9

34. POSITIVE CORRELATIONS
POSITIVE CORRELATIONS
COTROLLED FOR GENETIC DISTANCE BASED ON 1,079 SNPS (SOMATIC MUTATIONS)
COTROLLED FOR GENETIC DISTANCE BASED ON 1,079 SNPS (SOMATIC MUTATIONS)
4 . 10

35. SHOOTS OF HIGHEST PERFORMANCE CHARACTERIZED BY
SHOOTS OF HIGHEST PERFORMANCE CHARACTERIZED BY
Increased methylation/(expression?) in genes with functions related to
Protein refolding
Protein folding
Light harvesting in PSI
4 . 11

36. Epigenetic variation appears functionally relevant for
photosynthetic performance before and after heat
stress
4 . 12

37. CONCLUSIONS
CONCLUSIONS
5 . 1

38. DNA methylation is functionally relevant for
photosynthetic performance, independent from
underlying somatic mutations
5 . 2

39. DIRECT RELEVANCE FOR SEAGRASS MANAGEMENT AND RESTORATION
DIRECT RELEVANCE FOR SEAGRASS MANAGEMENT AND RESTORATION
Brendan Smialowski/Getty Images
5 . 3

40. MAIN REMAINING QUESTION
MAIN REMAINING QUESTION
IS THE EXPERIMENTAL METHYLOME SHIFT TRANSGENERATIONALLY STABLE AND ADAPTIVE
IS THE EXPERIMENTAL METHYLOME SHIFT TRANSGENERATIONALLY STABLE AND ADAPTIVE
TO HEAT?
TO HEAT?
Fonseca & Uhrin (2009), Marine Fisheries Review
6

41. Åbo Akademi University (Finland)
Christoffer Boström
University of New Hampshire
James A. Coyer
Nord University (Norway)
Martina Kopp
Anusha Dhanasiri
Irina Smolina
Galice Hoarau
University of Groningen
(Netherlands)
Jeanine L. Olsen
Ifremer (France)
Sophie Arnaud-Haond
Ghent University (Belgium)
Yves Van de Peer
COLLABORATORS
COLLABORATORS
FUNDING
FUNDING
7

42. ADDITIONAL SLIDES
ADDITIONAL SLIDES
8 . 1

43. NET LOSS OF SEAGRASS AREA
NET LOSS OF SEAGRASS AREA
Waycott et al. (2009); PNAS
8 . 2

44. SEQUENCING BATCH EFFECT
SEQUENCING BATCH EFFECT
8 . 3

45. NUMBER OF SHOOTS SHARING THE SAME HETEROZYGOUS
NUMBER OF SHOOTS SHARING THE SAME HETEROZYGOUS
STATE FOR 15,508 BIALLELIC SNPS.
STATE FOR 15,508 BIALLELIC SNPS.
8 . 4

46. CARBON SEQUESTRATION (48-160 TG C YR
CARBON SEQUESTRATION (48-160 TG C YR-1
-1)
)
Photo credit: Oscar Serrano, https://www.eurekalert.org/multimedia/pub/165345.php
8 . 5
Photo: Galice Hoarau