Some microalgae are adapted to extremely acidic environments in which toxic metals are present at high levels. However, little is known about how acidophilic algae evolved from their respective neutrophilic ancestors by adapting to particular acidic environments. To gain insights into this issue, we determined the draft genome sequence of the acidophilic green alga and performed comparative genome and transcriptome analyses between and its neutrophilic relative The results revealed the following features in that probably contributed to the adaptation to an acidic environment. Genes encoding heat-shock proteins and plasma membrane H-ATPase are highly expressed in This species has also lost fermentation pathways that acidify the cytosol and has acquired an energy shuttle and buffering system and arsenic detoxification genes through horizontal gene transfer. Moreover, the arsenic detoxification genes have been multiplied in the genome. These features have also been found in other acidophilic green and red algae, suggesting the existence of common mechanisms in the adaptation to acidic environments.

The genus Spirogyra is abundant in freshwater habitats worldwide, and comprises approximately 380 species. Species assignment is often difficult because identification is based on the characteristics of sexual reproduction in wild-collected samples and spores produced in the field or laboratory culture. We developed an identification procedure based on an improved methodology for inducing sexual conjugation in laboratory-cultivated filaments. We tested the modified procedure on 52 newly established and genetically different strains collected from diverse localities in Japan. We induced conjugation or aplanospore formation under controlled laboratory conditions in 15 of the 52 strains, which allowed us to identify 13 species. Two of the thirteen species were assignable to a related but taxonomically uncertain genus, Temnogyra , based on the unique characteristics of sexual reproduction. Our phylogenetic analysis demonstrated that the two Temnogyra species are included in a large clade comprising many species of Spirogyra . Thus, separation of Temnogyra from Spirogyra may be untenable, much as the separation of Sirogonium from Spirogyra is not supported by molecular analyses.

Microalgal storage lipids are considered to be a promising source for next-generation biofuel feedstock. However, microalgal biodiesel is not yet economically feasible due to the high cost of production. One of the reasons for this is that the use of a low-cost open pond system is currently limited because of the unavoidable contamination with undesirable organisms. Extremophiles have an advantage in culturing in an open pond system because they grow in extreme environments toxic to other organisms. In this study, we isolated the acidophilic green alga Pseudochlorella sp. YKT1 from sulfuric acid mine drainage in Nagano Prefecture, Japan. The vegetative cells of YKT1 display the morphological characteristics of Trebouxiophyceae and molecular phylogenetic analyses indicated it to be most closely related to Pseudochlorella pringsheimii. The optimal pH and temperature for the growth of YKT1 are pH 3.0–5.0 and a temperature 20–25°C, respectively. Further, YKT1 is able to grow at pH 2.0 and at 32°C, which corresponds to the usual water temperature in the outdoors in summer in many countries. YKT1 accumulates a large amount of storage lipids (∼30% of dry weigh) under a nitrogen-depleted condition at low-pH (pH 3.0). These results show that acidophilic green algae will be useful for industrial applications by acidic open culture systems.

Summary Nitellopsis obtusa (Charales, Charophyceae) are widely distributed from Europe to Asia; however, this species has been recorded in only the five lakes in central Honshu in Japan. This species was thought to be extinct in Japan, but was rediscovered in limited areas of Lake Kawaguchi in central Honshu. More recently, we discovered more Japanese populations of N. obtusa in Lake Biwa in western Honshu, and it became clear that the species had a broader distribution in Japan than originally believed. In addition, although only male or female thalli have been collected at each lake, both male and female thalli were found from Lake Biwa. This is the first report of a potentially sexual population of N. obtusa in Japan. The DNA sequences of three chloroplast DNA markers, including both coding and non‐coding regions, were identical in all specimens from Lake Kawaguchi and Lake Nojiri (Central Honshu), and differed from those of Lake Biwa and German specimens. Although Japanese and German specimens were genetically similar, Japanese specimens displayed considerable genetic diversity according to locality.

A green plant, which we have named "Misuzugoke", was found in acidic rivers in Nagano Prefecture, Japan, where it forms macroscopic mats or aggregates. The field-collected aggregates were nearly hemispherical and were composed of compact branched filaments radiating from a central base. The cells of the plant contained a single nucleus and numerous discoid chloroplasts lacking pyrenoids. Due to the plant's simple filamentous organization and absence of reproductive organs, its classification as an alga or a higher plant could not be determined from the field-collected material. When grown for more than 3 months on neutral agar medium (pH 7.0) containing hormones, leafy shoot buds characteristic of bryophytes appeared on the plant. A partial sequence of the plant's rbcL gene, which encodes the large subunit of ribulose-1, 5-bisphosphate carboxylase/oxygenase was 98% similar to that of Dicranella heteromalla (Hedw.) Schimp. (Haplolepideae, Bryopsida). Phylogenetic analyses based on rbcL gene sequences strongly indicate that Misuzugoke is positioned within the Haplolepideae. This mat-forming green plant is therefore considered to be a reduced form of moss in the Haplolepideae.