The Physcomitrella Genome Reveals Evolutionary Insights into the Conquest of Land by Plants

  title={The Physcomitrella Genome Reveals Evolutionary Insights into the Conquest of Land by Plants},
  author={Stefan Andreas Rensing and Daniel Lang and Andreas D. Zimmer and Astrid Y Terry and Asaf A. Salamov and Harris Shapiro and Tomoaki Nishiyama and Pierre‐François Perroud and Erika A. Lindquist and Yasuko Kamisugi and Takako Tanahashi and Keiko Sakakibara and Tomomichi Fujita and Kazuko Oishi and Tadasu Shin-I and Yoko Kuroki and Atsushi Toyoda and Yutaka Suzuki and Shin-ichi Hashimoto and Kazuo Yamaguchi and Sumio Sugano and Yuji Kohara and Asao Fujiyama and Aldwin M Anterola and Setsuyuki Aoki and Neil W. Ashton and William Brad Barbazuk and Elizabeth I. Barker and Jeffrey L. Bennetzen and Robert Eugene Blankenship and Sung Hyun Cho and Susan K. Dutcher and Mark Estelle and Jeffrey A. Fawcett and Heidrun Gundlach and Kousuke Hanada and Alexander Heyl and Katherine A. Hicks and Jon Hughes and Martin Lohr and Klaus F. X. Mayer and Alexander N. Melkozernov and Takashi Murata and David R. Nelson and Birgit Pils and Michael J. Prigge and Bernd Reiss and Tanya Renner and Stephane Rombauts and P. Rushton and Anton A. Sanderfoot and Gabriele Schween and Shin-han Shiu and Kurt Stueber and Frederica L. Theodoulou and Hank Tu and Yves van de Peer and Paul Verrier and Elizabeth R Waters and Andrew Wood and Lixing Yang and David J. Cove and Andrew C. Cuming and Mitsuyasu Hasebe and Susan M. Lucas and Brent D. Mishler and Ralf Reski and Igor V. Grigoriev and Ralph S. Quatrano and Jeffrey L. Boore},
  pages={64 - 69}
We report the draft genome sequence of the model moss Physcomitrella patens and compare its features with those of flowering plants, from which it is separated by more than 400 million years, and unicellular aquatic algae. This comparison reveals genomic changes concomitant with the evolutionary movement to land, including a general increase in gene family complexity; loss of genes associated with aquatic environments (e.g., flagellar arms); acquisition of genes for tolerating terrestrial… 

Exploring plant biodiversity: the Physcomitrella genome and beyond.

The Physcomitrella patens genome – a first stepping stone towards understanding bryophyte and land plant evolution

What the P. patens genome may teach us about land plant evolution and which additional species might be useful to explore in future are reviewed.

Genetics and Genomics of Physcomitrella patens

The moss Physcomitrella patens has become an established model organism in plant evolutionary and developmental biology, mainly due to a combination of two factors: its phylogenetic key position in the plant tree of life and the sum of its favorable biological features.

Studies of Physcomitrella patens reveal that ethylene-mediated submergence responses arose relatively early in land-plant evolution.

It is shown that extant bryophytes exhibit submergence-induced developmental plasticity, suggesting that submergence responses evolved relatively early in the evolution of land plants.

The Genome of the Model Moss Physcomitrella patens

Physcomitrella patens: A Model Bryophyte

Genomic comparisons and other studies suggest that there are many similarities in the ways in which mosses and angiosperms use environmental cues to develop, indicating conserved evolution; however, mosses also possess some unique sequences which might present novel gene functions.

The moss Physcomitrella patens: methods and tools from cultivation to targeted analysis of gene function.

The moss Physcomitrella patens joined the established set of plant models based on its evolutionary position bridging unicellular algae and vascular plants and a number of specific features alleviating gene function analysis, making it an interesting model for many research fields in plant biology.

Klebsormidium flaccidum genome reveals primary factors for plant terrestrial adaptation

The draft genome sequence of the filamentous terrestrial alga Klebsormidium flaccidum is reported to elucidate the early transition step from aquatic algae to land plants and suggests that, during evolution, this alga acquired the fundamental machinery required for adaptation to terrestrial environments.

Evolutionary crossroads in developmental biology: Physcomitrella patens

The moss Physcomitrella patens has recently emerged as a powerful genetically tractable model plant system that addresses a variety of key questions in plant developmental biology.

The Moss Physcomitrium (Physcomitrella) patens: A Model Organism for Non-Seed Plants[OPEN]

A number of technological advances have recently opened the door to forward genetics as well as extremely efficient and precise genome editing in P. patens, and areas where this moss has had the most impact on plant biology are described.



An ancient genome duplication contributed to the abundance of metabolic genes in the moss Physcomitrella patens

Based on a large collection of EST sequences, evidence is provided that the haploid moss Physcomitrella patens is a paleopolyploid as well and metabolic genes seem to have been retained in excess following the genome duplication in P. patens.

The organization of Physcomitrella patens RAD51 genes is unique among eukaryotic organisms

The presence of duplicated intronless RAD51 genes is unique among eukaryotes, and studies of further members of this lineage are needed to determine whether this feature may be typical of lower plants.

The Ancestral Developmental Tool Kit of Land Plants

The genome of the earliest embryophytes encoded homologues of many of the important developmental genes that have been identified in model angiosperm taxa, but the roles of these were probably somewhat different than the roles attributed to them in Arabidopsis and maize.

A dehydrin gene in Physcomitrella patens is required for salt and osmotic stress tolerance.

Direct genetic evidence in any plant species for a DHN exerting a protective role during cellular dehydration allowing recovery when returned to optimal growth conditions is provided.

The Genome of Black Cottonwood, Populus trichocarpa (Torr. & Gray)

Analyzing the draft genome of the black cottonwood tree, Populus trichocarpa, revealed a whole-genome duplication event; about 8000 pairs of duplicated genes from that event survived in the Populus genome.

Physcomitrella patens is highly tolerant against drought, salt and osmotic stress

A set of genes are identified that encode proteins exerting their function in maintaining the integrity of the plant cell as well as proteins that are known to be members of signaling networks that will serve as molecular markers and potential targets for future functional analyses.

Desiccation Tolerance in Bryophytes: A Reflection of the Primitive Strategy for Plant Survival in Dehydrating Habitats?1

A new phylogenetic analysis suggests that the basic mechanisms of tolerance seen in modern day bryophytes have changed little from the earliest manifestations of desiccation tolerance in land plants, and vegetative desiccence tolerance in the early land plants may have evolved from a mechanism present first in spores.

PlanTAPDB, a Phylogeny-Based Resource of Plant Transcription-Associated Proteins1[C][W][OA]

A substantial set of TAPs that are focused on, but not limited to, land plants are determined using PSI-BLAST searches and subsequent filtering and clustering steps, and initial analyses of selected gene families revealed that PlanTAPDB can easily be exerted for knowledge discovery.

The mechanism of gene targeting in Physcomitrella patens: homologous recombination, concatenation and multiple integration

Molecular analysis of TI at a single locus reinforces the view that HR is the major pathway by which transforming DNA is integrated in Physcomitrella, as a consequence of concatenation of the transforming DNA prior to integration.