Literature concerning the Physcomitrella genome/transcriptome

 

Rensing SA, Lang D., Zimmer A.D., Terry A., Salamov A., Shapiro H., Nishiyama T., Perroud P.-F., Lindquist E., Kamisugi Y., Tanahashi T., Sakakibara K., Fujita T., Oishi K., Shin-I T., Kuroki Y., Toyoda A., Suzuki Y., Hashimoto S., Yamaguchi K., Sugano S., Kohara Y., Fujiyama A., Anterola A., Aoki S., Ashton N., Barbazuk W.B., Barker E., Bennetzen J.L., Blankenship R., Cho S.H., Dutcher S.K., Estelle M., Fawcett J.A., Gundlach H., Hanada K., Heyl A., Hicks K.A., Hughes J., Lohr M., Mayer K., Melkozernov A., Murata T., Nelson D., Pils B., Prigge M., Reiss B., Renner T., Rombauts S., Rushton P.J., Sanderfoot A., Schween G., Shiu S., Stueber K., Theodoulou F.L., Tu H., Van de Peer Y., Verrier P.J., Waters E., Wood A., Yang L., Cove D., Cuming A.C., Hasebe M., Lucas S., Mishler B.D., Reski R., Grigoriev I.V., Quatrano R.S., Boore J.L. (2007) The genome of the moss Physcomitrella patens reveals evolutionary insights into the conquest of land by plants. Science Dec 13th 2007

 

Rensing SA, Ick J, Fawcett JA, Lang D, Zimmer A, Van de Peer Y, Reski R (2007) An ancient genome duplication contributed to the abundance of metabolic genes in the moss Physcomitrella patens. BMC Evol Biol 7:130

 

Zimmer A, Lang D, Richardt S, Frank W, Reski R, Rensing SA (2007) Dating the early evolution of plants: detection and molecular clock analyses of orthologs. Molecular Genetics and Genomics 278:393-402

 

Richardt S, Lang D, Reski R, Frank W and Rensing SA (2007) PlanTAPDB: A phylogeny-based resource of plant transcription associated proteins. Plant Physiol 143:1452-1466

 

von Stackelberg M, Rensing SA and Reski R (2006) Identification of genic moss SSR markers and a comparative analysis of twenty-four algal and plant gene indices reveal species-specific rather than group-specific characteristics of microsatellites. BMC Plant Biology 6:9

 

Lang D, Eisinger J, Reski R and Rensing S (2005) Representation and high-quality annotation of the Physcomitrella patens transcriptome demonstrates a high proportion of proteins involved in metabolism among mosses. Plant Biol 7:238-250

 

Rensing SA, Fritzowsky D, Lang D and Reski R (2005) Protein encoding genes in an ancient plant: analysis of codon usage, retained genes and splice sites in a moss, Physcomitrella patens. BMC Genomics 6:43

 

Nishiyama T, Fujita T, Shin-I T, Seki M, Nishide H, Uchiyama I, Kamiya A, Carninci P, Hayashizaki Y, Kohara Y and Hasebe M (2003) Comparative genomics of Physcomitrella patens gametophytic transcriptome and Arabidopsis thaliana: implication for land plant evolution, Proc Natl Acad Sci USA 100:8007-8012


Rensing SA, Lang D and Reski R (2003) In silico prediction of UTR repeats using clustered EST data. In: Proceedings of the German Conference on Bioinformatics 2003, Mewes H-W, Heun V, Frishman D, Kramer S (eds.), pp 117-122, Belleville Verlag Michael Farin, Munich, Germany


Sugiura C, Kobayashi Y, Aoki S, Sugita C and Sugita M (2003) Complete chloroplast DNA sequence of the moss Physcomitrella patens: evidence for the loss and relocation of rpoA from the chloroplast to the nucleus. Nucl Acids Res 31:5324-5331.


Rensing SA, Rombauts S, Van de Peer Y and Reski R (2002) Moss transcriptome and beyond. Trends Plant Sci 7:535-538.

 

Rensing SA, Rombauts S, Hohe A, Lang D, Duwenig E, Rouze P, Van de Peer Y and Reski R (2002) The transcriptome of the moss Physcomitrella patens: comparative analysis reveals a rich source of new genes. http://www.plant-biotech.net/Rensing_et_al_transcriptome2002.pdf

 

Machuka J, Bashiardes S, Ruben E, Spooner K, Cuming A, Knight C and Cove D (1999) Sequence analysis of expressed sequence tags from an ABA-treated cDNA library identifies stress response genes in the moss Physcomitrella patens. Plant Cell Physiol 1999 40:378-387


Reski R, Reynolds S, Wehe M, Kleber-Janke T, and Kruse S (1998) Moss (Physcomitrella patens) expressed sequence tags include several sequences which are novel for plants. Bot Acta 111:145-151