Morphology and molecular phylogeny of two marine diatom species, Falcula cf. media and F. rectangularis sp. nov. (Bacillariophyta) from Japan

REFERENCES

• Anonymous 1975. Proposals for a standardization of diatom terminology and diagnoses. Nova Hedwigia, Beiheft 53: 323–354.
   Google Scholar
• Ashworth M.P., Ruck E.C., Lobban C.S., Romanovicz D.K. & Theriot E.C. 2012. A revision of the genus Cyclophora and description of Astrosyne gen. nov. (Bacillariophyta), two genera with the pyrenoids contained within pseudosepta. Phycologia 51: 684–699. DOI: 10.2216/12-004.1.
   Web of Science ®Google Scholar
• Capella-Gutiérrez S., Silla-Martínez J.M. & Gabaldón T. 2009. trimAl: a tool for automated alignment trimming in large-scale phylogenetic analyses. Bioinformatics 25: 1972–1973. DOI: 10.1093/bioinformatics/btp348.
   PubMed Web of Science ®Google Scholar
• Chernomor O., Von Haeseler A. & Minh B.Q. 2016. Terrace aware data structure for phylogenomic inference from supermatrices. Systematic Biology 65: 997–1008. DOI: 10.1093/sysbio/syw037.
   PubMed Web of Science ®Google Scholar
• Cox E.J. 2015. Coscinodiscophyceae, Mediophyceae, Fragilariophyceae, Bacillariophyceae (diatoms). In: Syllabus of plant families. A. Engler’s Syllabus der Pflanzenfamilien, ed. 13. 2/1 Photoautotrophic eukaryotic algae – Glaucocystophyta, Cryptophyta, Dinophyta/Dinozoa, Haptophyta, Heterokontophyta/Ochrophyta, Chlorarachniophyta/Cercozoa, Euglenophyta/Euglenozoa, Chlorophyta, Streptophyta p.p. (Ed. by W. Frey), pp 64–103. Borntraeger, Berlin, Germany.
   Google Scholar
• Donadel L. & Torgan L.C. 2016. Falcula hyalina (Fragilariaceae, Bacillariophyta) from a coastal lagoon, Southern Brazil: an additional approach on its morphology. Phytotaxa 243: 185–189. DOI: 10.11646/phytotaxa.243.2.10.
   Web of Science ®Google Scholar
• Edgar R.C. 2004. MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Research 32: 1792–1797. DOI: 10.1093/nar/gkh340.
   PubMed Web of Science ®Google Scholar
• Fernandes L.F. & Calixto-Feres M. 2012. Morphology and distribution of two epizoic diatoms (Bacillariophyta) in Brazil. Acta Botanica Brasilica 26: 836–841. DOI: 10.1590/S0102-33062012000400012.
   Web of Science ®Google Scholar
• Fourtanier E & Kociolek J.P. 1999. Catalogue of the diatom genera. Diatom Research 14: 1–190. DOI: 10.1080/0269249X.1999.9705462.
   Google Scholar
• Geissler U. & Gerloff J. 1963. Elektronenmikroscopischen beitrage zur phylogeny der Diatomeen raphe. Nova Hedwigia 6: 339–352.
   Google Scholar
• Gómez F., Wang L. & Lin S. 2018. Morphology and molecular phylogeny of epizoic araphid diatoms on marine zooplankton, including Pseudofalcula hyalina gen. & comb. nov. (Fragilariophyceae, Bacillariophyta). Journal of Phycology 54: 557–570. DOI: 10.1111/jpy.12760.
   PubMed Web of Science ®Google Scholar
• Gouy M., Guindon S. & Gascuel O. 2010. SeaView version 4: a multiplatform graphical user interface for sequence alignment and phylogenetic tree building. Molecular Biology and Evolution 27: 221–224. DOI: 10.1093/molbev/msp259.
   PubMed Web of Science ®Google Scholar
• Güttinger W. 1994. Collection of SEM-micrographs of diatoms. Series 7. Own publication, Pura, Switzerland.
   Google Scholar
• Hoang D.T., Chernomor O., Von Haeseler A., Minh B.Q. & Vinh L.S. 2018. UFBoot2: improving the ultrafast bootstrap approximation. Molecular Biology and Evolution 35: 518–522. DOI: 10.1093/molbev/msx281.
   PubMed Web of Science ®Google Scholar
• Kalyaanamoorthy S., Minh B.Q., Wong T.K., Von Haeseler A. & Jermiin L.S. 2017. ModelFinder: fast model selection for accurate phylogenetic estimates. Nature Methods 14: 587–589. DOI: 10.1038/nmeth.4285.
   PubMed Web of Science ®Google Scholar
• Kumar S., Stecher G., Li M., Knyaz C. & Tamura K. 2018. MEGA X: Molecular Evolutionary Genetics Analysis across computing platforms. Molecular Biology and Evolution 35: 1547–1549. DOI: 10.1093/molbev/msy096.
   PubMed Web of Science ®Google Scholar
• Larsson A. 2014. AliView: a fast and lightweight alignment viewer and editor for large datasets. Bioinformatics 30: 3276–3278. DOI: 10.1093/bioinformatics/btu531.
   PubMed Web of Science ®Google Scholar
• Li X.S., Chen C.P., Liang J.R., Wu W.Z. & Gao Y.H. 2014. Morphology and occurrence of a marine epizoic diatom Falcula hyalina Takano (Bacillariophyta) in China. Algological Studies 145/146: 169–179. DOI: 10.1127/1864-1318/2014/0158.
   Google Scholar
• Lobban C.S., Schefter M., Jordan R.W., Arai Y., Sasaki A., Theriot E.C., Ashworth M.P., Ruck E.C. & Pennesi C. 2012. Coral-reef diatoms (Bacillariophyta) from Guam: new records and preliminary checklist, with emphasis on epiphytic species from farmer-fish territories. Micronesica 43: 237–479.
   Web of Science ®Google Scholar
• Lobban C.S. & Ashworth M.P. 2014. Lucanicum concatenatum, gen. nov., sp. nov., a benthic marine diatom from Guam, and a less restrictive diagnosis for Cyclophorales (Bacillariophyta). Marine Biodiversity Records 7: 1–8. DOI: 10.1017/S1755267214000918.
   Google Scholar
• Lobban C.S., Majewska R., Ashworth M.P., Bizsel N., Bosak S., Kooistra W.H.C.F., Lam D.W., Navarro J.N., Pennesi C., Sato S. et al. 2021. Diatom genus Hyalosira (Rhabdonematales emend.) and resolution of its polyphyly in Grammatophoraceae and Rhabdonemataceae with a new genus, Placosira, and five new Hyalosira species. Protist 172: Article 125816. DOI: 10.1016/j.protis.2021.125816.
   PubMed Web of Science ®Google Scholar
• López-Fuerte F.O., Siqueiros Beltrones D.A. & Altamirano-Cerecedo M.D.C. 2020. Species composition and new records of diatom taxa on Phyllodictyon pulcherrimum (Chlorophyceae) from the Gulf of California. Diversity 12: Article 339. DOI: 10.3390/d12090339.
   PubMedGoogle Scholar
• Medlin L.K. & Kaczmarska I. 2004. Evolution of the diatoms: V. Morphological and cytological support for the major clades and a taxonomic revision. Phycologia 43: 245–270. DOI: 10.2216/i0031-8884-43-3-245.1.
   Web of Science ®Google Scholar
• Medlin L.K. & Desdevises Y. 2016. Phylogeny of ‘araphid’ diatoms inferred from SSU and LSU rDNA, rbcL and psbA sequences. Vie et Milieu 66: 129–154.
   Web of Science ®Google Scholar
• Medlin L.K. & Desdevises Y. 2020. Phylogenetic reconstruction of diatoms using a seven-gene dataset, multiple outgroups, and morphological data for a total evidence approach. Phycologia 59: 422–436. DOI: 10.1080/00318884.2020.1795962.
   Web of Science ®Google Scholar
• Minh B.Q., Schmidt H.A., Chernomor O., Schrempf D., Woodhams M.D., Von Haeseler A. & Lanfear R. 2020. IQ-TREE 2: new models and efficient methods for phylogenetic inference in the genomic era. Molecular Biology and Evolution 37: 1530–1534. DOI: 10.1093/molbev/msaa015.
   PubMed Web of Science ®Google Scholar
• Nagumo T. & Kobayasi H. 1990. The bleaching method for gently loosening and cleaning a single diatom frustule. Diatom 5: 45–50. DOI: 10.11464/diatom1985.5.0_45.
   Google Scholar
• Nagumo T. & Tanaka J. 1994. Epiphytic diatoms on a red alga, Ptilota filicina J. Ag., in Hokkaido, Japan. Memoirs of the National Science Museum 27: 43–53 [in Japanese].
   Google Scholar
• Nagumo T. 1995. Simple and safe cleaning methods for diatom samples. Diatom 10: 88 [in Japanese]. DOI: 10.11464/diatom1985.10.0_88.
   Google Scholar
• Nakov T., Beaulieu J.M. & Alverson A.J. 2018. Accelerated diversification is related to life history and locomotion in a hyperdiverse lineage of microbial eukaryotes (Diatoms, Bacillariophyta). New Phytologist 219: 462–473. DOI: 10.1111/nph.15137.
   PubMed Web of Science ®Google Scholar
• Nawrocki E.P., Kolbe D.L. & Eddy S.R. 2009. Infernal 1.0: inference of RNA alignments. Bioinformatics 25: 1335–1337. DOI: 10.1093/bioinformatics/btp157.
   PubMed Web of Science ®Google Scholar
• Osada K. & Nagumo T. 2001. An introduction to diatom research. Bulletin of The Nippon Dental University, General Education 30: 131–142 [in Japanese].
   Google Scholar
• Prasad A.K.S.K., Livingston R.J. & Ray G.L. 1989. The marine epizoic diatom Falcula hyalina from Choctawhatchee Bay, the northeastern Gulf of Mexico: frustule morphology and ecology. Diatom Research 4: 119–129. DOI: 10.1080/0269249X.1989.9705057.
   Google Scholar
• Proshkina-Lavrenko [Proschkina-Lavrenko] A.I. 1963. Diatomeae novae e bentho maris Nigri. Botanicheskie materialy otdela sporovyh rastenii Botanicheskogo Instituta imeni V. L. Komarova Akademii Nauk SSSR 16: 36–45.
   Google Scholar
• Provasoli L. 1968. Media and prospects for the cultivation of marine algae. In: Culture and collection of algae (Ed. by A. Watanabe & A. Hattori), pp 63–75. The Japanese Society of Plant Physiologists, Hakone, Japan.
   Google Scholar
• Risjani Y., Witkowski A., Kryk A., Yunianta, Górecka E., Krzywda M., Safitri I., Sapar A., Dąbek P., Arsad S. et al. 2021. Indonesian coral reef habitats reveal exceptionally high species richness and biodiversity of diatom assemblages. Estuarine, Coastal and Shelf Science 261: Article 107551. DOI: 10.1016/j.ecss.2021.107551.
   Web of Science ®Google Scholar
• Ross R., Cox E.J., Karayeva N.I., Mann D.G., Paddock T.B.B., Simonsen R. & Sims P.A. 1979. An amended terminology for the siliceous components of the diatom cell. Nova Hedwigia, Beiheft 64: 513–533.
   Google Scholar
• Round F.E., Crawford R.M. & Mann D.G. 1990. The Diatoms. Biology & morphology of the genera. Cambridge University Press, Cambridge, UK. 747pp.
   Google Scholar
• Ryabushko L.I., Lishaev D.N. & Kovrigina N.P. 2019. Species diversity of epilithon diatoms and the quality of the waters of the Donuzlav Gulf ecosystem (Crimea, the Black Sea). Diversity 11: Article 114. DOI: 10.3390/d11070114.
   PubMedGoogle Scholar
• Sabir J.S.M., Theriot E.C., Lobban C.S., Alhebshi A.M., Al-Malki A.L., Hajrah N.H., Khiyami M.A., Obaid A.Y., Jansen R.K. & Ashworth M. P. 2018. Systematics of araphid diatoms with asymmetric rimoportulae or densely packed virgae, with particular attention to Hyalosynedra (Ulnariaceae, Bacillariophyta). Phytotaxa 347: 1–49. DOI: 10.11646/phytotaxa.347.1.1.
   Web of Science ®Google Scholar
• Sato S., Mann D.G., Matsumoto S. & Medlin L.K. 2008. Pseudostriatella (Bacillariophyta): a description of a new araphid diatom genus based on observations of frustule and auxospore structure and 18S rDNA phylogeny. Phycologia 47: 371–391. DOI: 10.2216/08-02.1.
   Web of Science ®Google Scholar
• Schwarz G. 1978. Estimating the dimension of a model. The Annals of Statistics 6: 461–464.
   Web of Science ®Google Scholar
• Sugawara K., Suzuki H., Kamiya M. & Osada K. 2021. Epiphytic diatoms on the red alga Laurencia saitoi Perestenko from Kominato, Chiba Prefecture, Japan. Bulletin of The Nippon Dental University, General Education 50: 15–26 [in Japanese]. DOI:10.14983/00001019.
   Google Scholar
• Sugawara K., Suzuki H., Kamiya M., Osada K. & Witkowski A. 2023. Morphology and molecular phylogeny of the marine diatom genus Nagumoea (Bacillariophyceae) from Japan. Phycological Research 71: 182–192. DOI: 10.1111/pre.12521.
   Web of Science ®Google Scholar
• Suzuki H., Tanaka J. & Nagumo T. 1999. Epiphytic diatoms on a red alga Plocamium telfairiae (Hooker et Harvey) Harvey in Shikine Island, the Izu Islands, Japan. Bulletin of The Nippon Dental University, General Education 28: 147–160 [in Japanese].
   Google Scholar
• Suzuki H. & Kobayashi A. 2002. Epiphytic diatoms on a red alga Neorhodomela aculeata (Prestenko) Masuda from Hokkaido, Japan. Bulletin of Aoyama Gakuin Senior High School 25: 62–77 [in Japanese].
   Google Scholar
• Suzuki H. & Nagumo T. 2003. Epiphytic diatoms on a red alga Corallina pilulifera Postels et Ruprecht from Hayama town, Kanagawa Prefecture, Japan. Bulletin of The Nippon Dental University, General Education 32: 109–118 [in Japanese].
   Google Scholar
• Suzuki H. & Nagumo T. 2004. Epiphytic diatoms on a red alga Asparagopsis taxiformis (Delile) Trevisan from Hachijo Island, Izu Islands, Japan. Bulletin of The Nippon Dental University, General Education 33: 61–71 [in Japanese].
   Google Scholar
• Takano H. 1961. Epiphytic diatoms upon Japanese agar sea-weeds. Bulletin of Tokai Regional Fisheries Research Laboratory (31): 269–274.
   Google Scholar
• Takano H. 1962. Notes on epiphytic diatoms upon sea-weeds from Japan. The Journal of the Oceanographical Society of Japan 18: 29–33.
   Google Scholar
• Takano H. 1983. New and rare diatoms from Japanese marine waters -XI. Three new species epizoic on copepods. Bulletin of Tokai Regional Fisheries Research Laboratory (111): 23–35.
   Google Scholar
• Tanaka M., Makita N. & Ogawa T. 2019. Observations on the small white spots on the surface of the brown algae Wakame, Undaria pinnatifida (Harvey) Suringar. The Journal of Yokkaichi University 32: 129–137 [in Japanese].
   Google Scholar
• Theriot E.C., Ashworth M.P., Ruck E.C., Nakov T. & Jansen R.K. 2010. A preliminary multigene phylogeny of the diatoms (Bacillariophyta): challenges for future research. Plant Ecology and Evolution 143: 278–296. DOI: 10.5091/plecevo.2010.418.
   Web of Science ®Google Scholar
• Theriot E.C., Ashworth M.P., Nakov T., Ruck E.C. & Jansen R.K. 2015. Dissecting signal and noise in diatom chloroplast protein encoding genes with phylogenetic information profiling. Molecular Phylogenetics and Evolution 89: 28–36. DOI: 10.1016/j.ympev.2015.03.012.
   PubMed Web of Science ®Google Scholar
• Voigt M. 1960. Falcula, un nouveau genre de Diatomeés de la Méditerrannée. Revue Algologique, Nouvelle Série 5: 85–88.
   Google Scholar
• Voigt M. 1961. Sur le genre Falcula. Revue Algologique, Nouvelle Série 6: 53–56.
   Google Scholar
• Williams D.M. & Round F.E. 1986. Revision of the genus Synedra Ehrenb. Diatom Research 1: 313–339. DOI: 10.1080/0269249X.1986.9704976.
   Google Scholar
• Williams D.M. 2020. Diatom classifications: what purpose do they serve? In: Modern trends in diatom identification: fundamentals and applications (Ed. by G. Cristóbal, S. Blanco & G. Bueno), pp 11–24. Springer, Berlin, Germany. DOI: 10.1007/978-3-030-39212-3_2.
   Google Scholar
• Williams D.M. & Karthick B. 2021. The correct use of the names Synedra Ehrenberg and Catacombas Williams & Round, a note on the name ‘Hystrix Bory 1822’, and some suggestions how to tackle the taxonomic relationships of Synedra. Diatom Research 36: 107–118. DOI: 10.1080/0269249X.2021.1880974.
   Web of Science ®Google Scholar