Molecular and breeding studies on two pan-tropical marine red algae reveal vastly different levels of genetic variation and reproductive isolation. Sequenced DNA regions from the nuclear, mitochondrial and plastid genomes (partial LSU rRNA, cox2-3 spacer, RuBisCo spacer, respectively) revealed high genetic variation among individuals of Spyridia filamentosa. An rbcL analysis shows that Spyridia is a monophyletic genus distinct from other Ceramiaceae sampled, suggesting that the Ceramiaceae could be paraphyletic. There is complete congruence between all data sets of S. filamentosa, showing a well-supported phylogeographic pattern with samples from the Pacific distinct from Atlantic and Indian Ocean samples. One western Mediterranean sample is associated with Atlantic specimens, while an eastern Mediterranean sample has closer affinities to Pacific samples, possibly indicating a recent cryptic introduction into the eastern Mediterranean. Limited breeding studies imply that these samples are mostly reproductively isolated, whereas a successful cross demonstrated maternal inheritance of organellar DNA. These data indicate that S. filamentosa exists as several cryptic species. Murrayella periclados exhibits low levels of genetic variation and no phylogeographic structure, and almost complete reproductive compatibility between isolates. This suggests that all M. periclados samples share a recent common ancestor that may have dispersed relatively rapidly, or that rates of base pair substitution between these two species vary greatly. Rapid long-distance dispersal of M. periclados is not indicated by what is known of the biology of M. periclados, especially in comparison with S. filamentosa, which appears to be a much better candidate for long-distance dispersal. These data demonstrate that red algal morphospecies are not equivalent units of diversity, with implications for our view of red algal biodiversity and evolution.

Phylogenetic relationships within the Sphacelariales sensu stricto were investigated using both a molecular and a morphological approach. Twenty species were included, representing all three families (i.e. Cladostephaceae, Sphacelariaceae and Stypocaulaceae) and six of the eight genera. The outgroup consisted of six species representing the Syringodermatales, Dictyotales, Choristocarpaceae and Onslowiaceae. DNA sequences of partial rbcL [1255–1375 nucleotides (nt)] and the adjacent RUBISCO spacer (40–842 nt) were determined in order to assess the molecular phylogeny. Only the 3′-end of the spacer (112 nt positions) was alignable for the ingroup taxa. Partition homogeneity testing showed that rbcL and RUBISCO spacer sequences could be combined. However, analysis of rbcL alone or in combination with the RUBISCO spacer gave the same results with only slight differences in support (bootstrap, jackknife, decay). Support was low at the base of the ingroup. Four basal clades could be discerned: (1) Stypocaulaceae, (2) Sphacelaria radicans, (3) Sphacelaria caespitula and (4) all other included taxa: (Sphacella subtilissima+the Sphacelaria subgenus Propagulifera) and (Cladostephus spongiosus+Sphacelaria nana+the Sphacelaria subgenera Battersia+Pseudochaetopteris). The independent morphological analysis (using 23 unordered morphological characters) revealed high homoplasy and an almost completely unresolved tree in which only the subgenus Propagulifera was supported. The morphological characters were subsequently mapped onto the rbcL tree in order to identify diagnostic or phylogenetically informative characters. Blackening in response to bleach and the presence of secondary segments were found to be basal synapomorphies for the Sphacelariales; presence of propagules with a lenticular central apical cell defines the Propagulifera; and strict acroblastic branching mode and axillary zoidangia define the Stypocaulaceae. The remaining characters have been gained or lost multiple times. This study highlights the problem of extreme morphological convergence and/or plasticity. Four options for a new circumscription including nomenclatural changes are discussed. It is concluded that none of the options will lead to greater clarity with respect to either identification or classification.

Patterns of nuclear and organelle inheritance among artificial hybrids of the seaweeds Fucus serratus and F. evanescens were detected using single-strand conformation polymorphism (SSCP). Three alleles were identified in the 231 bp rDNA-ITS1 gene (nuclear): two in F. serratus and one in F. evanescens. Alleles differed by 1–2 bp and all hybrids possessed one allele from each parent. Two haplotypes were present in the 288 bp Rubisco spacer (chloroplast), differentiated by a 33 bp indel. Two haplotypes differing by a single nucleotide were found in a 135 bp region of nad11 gene (mitochondrion). Both organelles are maternally inherited, as all hybrids contained the haplotypes of the parent contributing the egg. Although laboratory hybrids among Fucus spp. have been produced previously, this is the first time that both nuclear and cytoplasmic genetic markers have been used to document inheritance patterns. SSCPs analysed on an automated sequencer offer a rapid and powerful approach for identifying suspected hybrids from field samples, as well as a screen for intraspecific and intra-individual variation in DNA regions prior to confirmation of variations by sequencing.

Sequence variation among 22 isolates representing a global distribution of the prymnesiophyte genus Phaeocystis has been compared using nuclear-encoded 18S rRNA genes and two non-coding regions: the ribosomal DNA internal transcribed spacer 1 (ITS1) separating the 18S rRNA and 5·8S rRNA genes and the plastid ribulose-1,5-bisphosphate carboxylase/oxygenase (RUBISCO) spacer flanked by short stretches of the adjacent large and small subunits (rbcL and rbcS). 18S rRNA can only resolve major species complexes. The analysis suggests that an undescribed unicellular Phaeocystis sp. (isolate PLY 559) is a sister taxon to the Mediterranean unicellular Phaeocystis jahnii; this clade branched prior to the divergence of all other Phaeocystis species, including the colonial ones. Little divergence was seen among the multiple isolates sequenced from each colonial species complex. RUBISCO spacer regions are even more highly conserved among closely related colonial Phaeocystis species and are identical in Phaeocystis antarctica, Phaeocystis pouchetii and two warm-temperate strains of Phaeocystis globosa, with a single base substitution in two cold-temperate strains of P. globosa. The RUBISCO spacer sequences from two predominantly unicellular Phaeocystis isolates from the Mediterranean Sea and PLY 559 were clearly different from other Phaeocystis strains. In contrast, ITS1 exhibited substantial inter- and intraspecific sequence divergence and showed more resolution among the taxa. Distinctly different copies of the ITS1 region were found in P. globosa, even among cloned DNA from a single strain, suggesting that it is a species complex and making this region unsuitable for phylogenetic analysis in this species. However, among nine P. antarctica strains, four ITS1 haplotypes could be separated. Using the branching order in the ITS1 tree we have attempted to trace the biogeographic history of the dispersal of strains in Antarctic coastal waters.

Alaria (Alariaceae, Phaeophyceae) is a common genus of kelps in the northern hemisphere. Fourteen species are currently recognized, of which three, Alaria esculenta (L.) Greville, A. pylaii (Bory de Saint-Vincent) Greville and A. grandifolia J. Agardh, are reported for the cold-temperate North Atlantic Ocean. Alaria esculenta, the type species described originally from the North Atlantic, exhibits a range of biogeographically correlated morphotypes suggesting the possibility of multiple species, subspecies or hybrids. In Ireland we discovered an A. esculenta population with unusually long stipes resembling the type specimen of A. grandifolia described from Spitsbergen by J. Agardh in 1872. These and other plants of A. esculenta from Ireland were compared with plants from Spitsbergen fitting the description of A. grandifolia, using sexual hybridization, relative growth rate measurements and DNA sequence comparisons. Complete interfertility was observed between the different isolates. Three nucleotide substitutions (0·37 %) were found in the rbcL and RuBisCo spacer of A. grandifolia, and two in the partial 18S rRNA gene and ITS1 sequences. The relative growth rate at 10 °C of an Irish self-cross was significantly lower than those of all the other crosses. Comparison of RuBisCo spacer sequences of the Spitsbergen A. grandifolia and six A. esculenta isolates showed that A. grandifolia was identical to A. esculenta from Halifax, Canada. The partial 18S rRNA gene and ITS1 sequence of A. grandifolia was identical to that of A. praelonga from Japan and differed by a single substitution from A. esculenta from Scotland and by two nucleotide substitutions from the isolate from Ireland. The intraspecific differences in A. esculenta, together with the hybridization and morphometric results, suggest that A. grandifolia is to be considered conspecific with A. esculenta, and that A. grandifolia is most probably a large deep-water morphological variant, subspecies or ecotype of A. esculenta.

As a basis for inferring phylogenetic relationships between Pelvetia and Pelvetiopsis in the family Fucaceae, the complete sequences of the plastid-encoded RuBisCo spacer region were determined for all four species of Pelvetia, for the type species of Pelvetiopsis, P. limitata, and for three other fucacean species (Ascophyllum nodosum, Fucus gardneri and F. vesiculosus). All trees based on the sequences of the RuBisCo spacer region showed that Pelvetia is not monophyletic and consists of two clades, one including P. babingtonii, P. compressa, and P. siliquosa, the other comprising only the type species, P. canaliculata. P. canaliculata is not closely related to any of the other Fucaceae studied, and it may represent a monotypic genus. RuBisCo spacer sequences support the establishment of a new genus for the three Pacific Pelvetia species: P. babingtonii, P. compressa and P. siliquosa. The congruence of the RuBisCo spacer data with reported nuclear rDNA 18S and ITS sequences, and with biogeographical and morphological data, indicates that the RuBisCo spacer region, including its flanking areas, is useful for inferring phylogenetic relationships within the Fucaceae.