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The molecular population genetics of shoot development in Arabidopsis thaliana

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Abstract

Studies in Arabidopsis thaliana have provided us with a wealth of information about the genetic pathways that regulate plant morphogenesis. This developmental genetic treasure trove represents a fantastic resource for researchers interested in the microevolution of development. Several laboratories have begun using molecular population genetic analyses to investigate the evolutionary forces that act upon loci that regulate shoot morphogenesis. Much of this work has focused on coding sequence variation in transcription factors; however, recent studies have explored sequence variation in other types of proteins and in promoter regions. Several genes that regulate shoot development contain signatures of selective sweeps associated with positive selection or harbor putative balanced polymorphisms in coding and noncoding sequences. Other regulatory genes appear to be evolving neutrally, but have accumulated potentially deleterious replacement polymorphisms.

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Abbreviations

ACL5 :

ACAULIS5

AP :

APETALA

Bla-1:

Blanes/Gerona-1

Cvi-0:

Cape Verde Islands

CAL :

CAULIFLOWER

CLV :

CLAVATA

Col-0:

Columbia

CRY2 :

CRYPTOCHROME2

FLC :

FLOWERING LOCUS C

FRI :

FRIGIDA

FUL :

FRUITFULL

GL1 :

GLABROUS1

Gr-3:

Graz-3

Ler :

Landsberg erecta

LFY :

LEAFY

LRR:

Leucine-rich repeat

LD:

Linkage disequilibrium

PHYA :

PHYTOCHROME A

PI :

PISTILLATA

QTL:

Quantitative trait locus

SEP :

SEPALLATA

πsilent :

Silent site nucleotide diversity

πs :

Synonymous site nucleotide diversity

πa :

Nonsynonymous site nucleotide diversity

TFL1 :

TERMINAL FLOWER1

VRN 1, 2 :

VERNALIZATION 1 and 2

VIN3 :

VERNALIZATION INSENSITIVE3

WUS :

WUSCHEL

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Acknowledgements

I am grateful to Tom Jack for sharing results prior to publication and to Hilary Callahan, Ken Olsen, Michael Purugganan, members of my laboratory, and an anonymous reviewer for helpful comments on drafts of this manuscript. Research in my laboratory is supported by the D.D.E. fund at Barnard College.

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  1. Department of Biological Sciences, Barnard College, Columbia University, 3009 Broadway, New York, NY, 10027, USA

    Kristen A. Shepard

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Shepard, K.A. The molecular population genetics of shoot development in Arabidopsis thaliana . Genetica 129, 19–36 (2007). https://doi.org/10.1007/s10709-006-0030-5

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