Sequence and phylogenetic analyses of the chloroplast 16S rRNA, tufA, and rbcL genes from Bryopsis hypnoides

Fang Lü; Guangce Wang

doi:10.1007/s00343-011-0084-9

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Sequence and phylogenetic analyses of the chloroplast 16S rRNA, tufA, and rbcL genes from Bryopsis hypnoides

Updated：2023-05-16

- Sequence and phylogenetic analyses of the chloroplast 16S rRNA, tufA, and rbcL genes from Bryopsis hypnoides
- Journal of Oceanology and Limnology Vol. 29, Issue 5, Pages: 922-929(2011)
- Affiliations：
  
  Institute of Oceanology Chinese Academy of Sciences
- Author bio：
- Funds：
- DOI：10.1007/s00343-011-0084-9
  CLC：
- Online First：08 August 2011，
  
  Published：2011
- Accepted：
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Lü, F., Wang, G. Sequence and phylogenetic analyses of the chloroplast 16S rRNA, tufA, and rbcL genes from Bryopsis hypnoides, ., Chin. J. Ocean. Limnol. 29, 922–929 (2011). https://doi.org/10.1007/s00343-011-0084-9
DOI：

Lü, F., Wang, G. Sequence and phylogenetic analyses of the chloroplast 16S rRNA, tufA, and rbcL genes from Bryopsis hypnoides, ., Chin. J. Ocean. Limnol. 29, 922–929 (2011). https://doi.org/10.1007/s00343-011-0084-9 DOI：

摘要

Abstract

Using shotgun sequencing data

the complete sequences of chloroplast 16S rRNA and tufA genes were acquired from native specimens of Bryopsis hypnoides (Qingdao

China). There are two group I introns in the 16S rRNA gene

which is structurally similar to that of Caulerpa sertularioides (Bryopsidales

Chlorophyta). The chloroplast-encoded tufA gene sequence is 1 230 bp long

very AT-rich (61.5%)

and is similar to previously published 16S rRNA sequences of bryopsidinean algae. Phylogenetic analyses based on chloroplast 16S rRNA and tufA gene sequence data support previous hypotheses that the Bryopsidineae

Halimedineae

and Ostreobidineae are three distinct lineages. These results also confirmed the exclusion of Avrainvillea from the family Udoteaceae. Phylogenetic analyses inferred that the genus Bryopsis as sister to Derbesia; however

this clade lacked robust nodal support. Moreover

the phylogenetic tree inferred from rbcL GenBank sequences

combined with the geographical distributions of Bryopsis species

identified a strongly supportive clade for three differently distributed Asian Bryopsis species. The preliminary results suggesting that these organisms are of distinct regional endemism.

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references

Becerro M A, Goetz G, Paul V J, Scheuer P J. 2001. Chemical defences of the sacoglossan mollusk Elysia rufescens and its host alga Bryopsis sp. J. Chem. Ecol., 27: 2 287–2 299.

Cannone J J, Subramanian S, Schnare M N, Collett J R, D’souza L M, Du Y, Feng B, Lin N, Madabusi L V, Mûller K M, Pande N, Shand Z, Yu N, Gutell R R. 2002. The comparative RNA Web (CRW) site: an online database of comparative sequence and structure information for ribosomal, intron, and other RNAs. BMC Bioinformatics, 3: 2–15.

Cocquyt E, Verbruggen H, Leliaert F, Zechman F W, Sabbe K, De Clerck O. 2009. Gain and loss of elongation factor genes in green algae. BMC Evol. Biol., 9: 39.

Curtis N E, Dawes C J, Pierce S K. 2008. Phylogenetic analysis of the large subunit rubisco gene supports the exclusion of Avrainvillea and Cladocephalus from the Udoteaceae (Bryopsidales, Chlorophyta). J. Phycol., 44: 761–767.

Famà P, Wysor B, Kooistra W, Zuccarello G C. 2002. Molecular phylogeny of the genus Caulerpa (Caulerpales, Chlorophyta) inferred from chloroplast tufA gene. J. Phycol., 38: 1 040–1 050.

Hamann M T, Otto C S, Scheur P J. 1996. Kahalalides: Bioactive peptides from a marine mollusk Elysia rufuscens and its algal diet Bryopsis sp. J. Org. Chem., 61: 6 594–6 600.

Kim G H, Klotchkova T A, Kang Y. 2001. Life without a cell membrane: regeneration of protoplasts from disintegrated cells of the marine green alga Bryopsis plumosa. J. Cell. Sci., 114: 2 009–2 014.

Kooistra W H C E. 2002. Molecular phylogenies of Udoteaceae (Bryopsidales, Chlorophyta) reveal nonmonophyly for Udotea, Penicillus and Chlorodesmis. Phycologia, 41, 453–462.

Lam D W, Zechman F W. 2006. Phylogenetic analyses of the Bryopsidales (Ulvophyceae, Chlorophyta) based on Rubisco large subunit gene sequences. J. Phycol., 42: 669–678.

Michel F, Umesono K, Ozeki H. 1989. Comparative and functional anatomy of group II catalytic introns—a review. Gene, 82(1): 5–30.

Michel F, Westhof E. 1990. Modelling of the three-dimensional architecture of group I catalytic introns based on comparative sequence analysis. J. Mol. Biol., 216(3): 585–610.

Nei M, Kumar S. 2000. Molecular Evolution and Phylogenetics. Oxford University Press, New York.

Olson K N, Melton R S, Yaudes K M, Norwood K G, Freshwater D W. 2005. Characteristics and utility of plastid-encoded 16S rRNA gene sequence data in phylogenetic studies of red algae. J. North Carolina Acad. Sci., 120: 143–151.

Saez A G, Zaldivar-Riveron A, Medlin L K. 2008. Molecular systematics of the Pleurochrysidaceae, a family of coastal coccolithophores (Haptophyta). J. Plankton Res., 30(5): 559–566.

Tamura K, Dudley J, Nei M, Kumar S. 2007. MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) Software Version 4.0. Mol. Biol. Evol., 24(8): 1 596–1 599.

Thompson J D, Gibson T J, Plewniak F, Jeanmougin F, Higgins D G. 1997. The CLUSTAL windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res., 24: 4 876–4 882.

Tian C, Wang G C, Ye N H, Zhang B Y, Fan X L, Zeng C K. 2005. Cloning and sequence analysis of the partial sequence of the rbcL from Bryopsis hypnoides. Acta Oceanol. Sin., 24: 150–161.

Verbruggen H, Ashworth M, LoDuca S T, Vlaeminck C, Cocquyt E, Sauvage T, Zechman F W, Littler D S, Littler M M, Leliaert F, Clerck O D. 2009. A multi-locus time-calibrated phylogeny of the siphonous green algae. Mol. Phylogenet. Evol., 50: 642–653.

Vroom P S, Smith C M, Keeley S C. 1998. Cladistics of the bryopsidales: a preliminary analysis. J. Phycol., 34: 351–360.

William J H. 2002. A phylogenetic analysis of the Arecoid Line of palms based on plastid DNA sequence data. Mol. Phylogenet Evol., 23: 189–204.

Woolcott G W, Knoller K, King R J. 2000. Phylogeny of the Bryopsidaceae (Bryopsidales, Chlorophyta): cladistic analyses of morphological and molecular data. Phycologia, 39: 471–481.

Ye N H, Wang G C, Wang F Z, Zeng C K. 2005. Formation and growth of Bryopsis hypnoides Lamouroux regenerated from its protoplasts. J. Integr. Plant. Biol., 47: 856–862.

Zhou Y, Lu C, Wu Q J, Wang Y, Sun Z T, Deng J C, Zhang Y. 2008. GISSD: Group I intron sequence and structure database. Nucleic Acids Res., 36: Database issue D31–D37.

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