Seascape genomics of the pink abalone (Haliotis corrugata): An insight into a cross-border species in the northeast Pacific coast.

Seascape genomics gives insight into the geographic and environmental factors shaping local adaptations. It improves the understanding of the potential effects of climate change, which is relevant to provide the basis for the international management of fishery resources. The pink abalone (Haliotis corrugata) is distributed from California, United States to Baja California Sur, Mexico, exposed to a latitudinal environmental gradient in the California Current System. Management of the pink abalone contrasts between Mexico and the United States; Mexico has an active fishery organized in four administrative areas, while the United States has kept the fishery in permanent closure since 1996. However, the impact of environmental factors on genetic variation along the species distribution remains unknown, and understanding this relationship is crucial for effective spatial management strategies. This study aims to investigate the neutral and adaptive genomic structure of H. corrugata. A total of 203 samples from 13 locations were processed using ddRADseq, and covering the species' distribution. Overall, 2,231 neutral, nine potentially adaptive and three genomic-environmental association loci were detected. The neutral structure identified two groups: 1) California, United States and 2) Baja California Peninsula, México. In addition, the adaptive structure analysis also detected two groups with genetic divergence observed at Punta Eugenia. Notably, the seawater temperature significantly correlated with the northern group (temperate) and the southern (warmer) group. This study is a valuable foundation for future research and conservation initiatives, emphasizing the importance of considering neutral and adaptive genetic factors when developing management strategies for marine species.

Are Prorocentrum hoffmannianum and Prorocentrum belizeanum (DINOPHYCEAE, PROROCENTRALES), the same species? An integration of morphological and molecular data.

The taxonomic assignment of Prorocentrum species is based on morphological characteristics; however, morphological variability has been found for several taxa isolated from different geographical regions. In this study, we evaluated species boundaries of Prorocentrum hoffmannianum and Prorocentrum belizeanum based on morphological and molecular data. A detailed morphological analysis was done, concentrating on the periflagellar architecture. Molecular analyses were performed on partial Small Sub-Unit (SSU) rDNA, partial Large Sub-Unit (LSU) rDNA, complete Internal Transcribed Spacer Regions (ITS1-5.8S-ITS2), and partial cytochrome b (cob) sequences. We concatenated the SSU-ITS-LSU fragments and constructed a phylogenetic tree using Bayesian Inference (BI) and maximum likelihood (ML) methods. Morphological analyses indicated that the main characters, such as cell size and number of depressions per valve, normally used to distinguish P. hoffmannianum from P. belizeanum, overlapped. No clear differences were found in the periflagellar area architecture. Prorocentrum hoffmannianum and P. belizeanum were a highly supported monophyletic clade separated into three subclades, which broadly corresponded to the sample collection regions. Subtle morphological overlaps found in cell shape, size, and ornamentation lead us to conclude that P. hoffmanianum and P. belizeanum might be considered conspecific. The molecular data analyses did not separate P. hoffmannianum and P. belizeanum into two morphospecies, and thus, we considered them to be the P. hoffmannianum species complex because their clades are separated by their geographic origin. These geographic and genetically distinct clades could be referred to as ribotypes: (A) Belize, (B) Florida-Cuba, (C1) India, and (C2) Australia.

Darkedge midshipman Porichthys analis (Batrachoidiformes: Batrachoididae), a common shrimp-bycatch fish from the Gulf of California.

Shrimp fishery bycatch of the Gulf of California constitutes a wide variety of highly unknown fish, crustacean, and mollusk species with very low or null economic value, in contrast to those of commercial interest. However, there are no studies yet on the role of these low economic valued species have in the community structure and function, together with their possible effect on commercial populations. With the aim of contributing to the knowledge of Darkedge Midshipman fish Porichthys analis, the most common waste species in this fishery, we estimated some population characteristics. For this purpose, we obtained shrimp-bycatch fish during the 2004-2005 fishing season and performed some research surveys. A total of 1 725 Darkedge Midshipman were captured from 350 bycatch samples. Individual size ranged from 43-352mm SL. The weight to standard length relationship was determined as W=0.000092SL(3.0509). Von Bertalanffy's growth coefficient indicated a moderate growth rate (K=0.5) with an estimated asymptotic length of L(infinity) = 352mm standard length, and a longevity of 6yr. Natural mortality was estimated as 0.97 and total mortality as 4.67. The recruitment pattern, as estimated by ELEFAN II, was extended over the year, peaking during spring and summer seasons. Sexual proportion of male:female was 1.65:1. Mature organisms appeared from August to March, and length at maturity was 157mm SL, which is larger than the mean size at capture 135mm SL. We concluded that the species is indirectly protected by its own bathymetric distribution and the off-shrimping season. This is the first study that considers population characteristics from this common but still unknown species.

Population parameters of the Pacific flagfin mojarra Eucinostomus currani (Perciformes: Gerreidae) captured by shrimp trawling fishery in the Gulf of California.

Shrimp trawling fishery in the Gulf of California captures a wide variety of non-target species of fish, crustaceans, and mollusks that are relatively unknown. The Pacific flagfin mojarra Eucinostomus currani is a frequently found species in these catches, nevertheless, nothing is currently known about its population dynamics. To contribute to the knowledge on this fish species, we studied the size structure, growth, mortality, and the recruitment pattern during the 2004-2005 seasons. A total of 6,078 mojarra were captured from 350 samples, with minimum and maximum lengths of 4.5 cm and a maximum of 21.0 cm. The average total length of the four major cohorts was 11.4, 13.7, 15.6 and 18.0 cm, corresponding to ages 0.9, 1.2, 1.6 and 2.2 years, respectively, being the most abundant the 1.2 year-old group. The instant growth coefficient indicated moderate growth rates (K(s) = 0.81/year, K(E) = 0.85/year), corresponding to individuals living between 3.5 to 3.7 years. The estimated asymptotic lengths was L (infinity) = 21.8 cm. In general, the population could be considered healthy: natural mortality (M = 1.53/year); total mortality (Z = 2.73/year); condition factor (K = 0.01072); fishery mortality (F = 1.2/year) and exploitation rate (E = 0.43/year). The maximum reproduction period almost coincided with the closed season for shrimp fishing (March to August), thus we concluded that survival of the species is ensured because reproduction is indirectly protected.

Review: Post-translational modifications of marine shell matrix proteins.

Shell matrix proteins (SMPs) are key components for the Mollusk shell biomineralization. SMPs function has been hypothesized in several proteins by bioinformatics analysis, and through in vitro crystallization assays. However, studies of the post-translational modifications (PTMs) of SMPs, which contribute to their structure and the function, are limited. This review provides the current status of the SMPs with the most common PTMs described (glycosylation, phosphorylation, and disulfide bond formation) and their role in shell biomineralization. Also, recent studies based on recombinant production of SMPs are discussed. Finally, recommendations for the study of SMPs and their PTMs are provided. The review showed that PTMs are widely distributed in SMPs, and their presence on SMPs may contribute to the modulation of their activity in some SMPs, contributing to the crystal growth formation and differentiation through different mechanisms, however, in a few cases the lack of the PTMs do not alter their inherent function.

Ps19, a novel chitin binding protein from Pteria sterna capable to mineralize aragonite plates in vitro.

Mollusk shell is composed of two CaCO3 polymorphs (calcite and aragonite) and an organic matrix that consists of acetic acid- or ethylenediaminetetraacetic acid (EDTA)-soluble and insoluble proteins and other biomolecules (polysaccharides, ß-chitin). However, the shell matrix proteins involved in nacre formation are not fully known. Thus, the aim of this study was to identify and characterize a novel protein from the acetic acid-insoluble fraction from the shell of Pteria sterna, named in this study as Ps19, to have a better understanding of the biomineralization process. Ps19 biochemical characterization showed that it is a glycoprotein that exhibits calcium- and chitin-binding capabilities. Additionally, it is capable of inducing aragonite plate crystallization in vitro. Ps19 partial peptide sequence showed similarity with other known shell matrix proteins, but it displayed similarity with proteins from Crassostrea gigas, Mizuhopecten yessoensis, Biomphalaria glabrata, Alpysia californica, Lottia gigantea and Elysia chlorotica. The results obtained indicated that Ps19 might play an important role in nacre growth of mollusk shells.

A shell matrix protein of Pinctada mazatlanica produces nacre platelets in vitro.

Nacre is the main component of the pearl oyster shells and it is synthesized by specialized soluble and insoluble shell matrix proteins. Insoluble proteins from the decalcification of the shell are the less studied proteins due to the technical problems to isolate them from the organic matrix. In this study, an insoluble shell matrix protein from Pinctada mazatlanica, pearlin (Pmaz-pearlin), was successfully cloned from the mantle tissue, and the native protein isolated from the shell was functionally characterized. The full coding sequence of Pmaz-pearlin mRNA consists of 423 base pairs, which encode to a 16.3 kDa pearlin. Analysis of the deduced amino acid sequence revealed that Pmaz-pearlin contained four acidic regions, an NG repeat domain, and Cys conserved residues, the latter potentially forms four disulfide bridges which might stabilize the protein structure. The isolated protein from the shell is a glycoprotein of ~ 16.74 kDa which can produce aragonite and calcite crystals in vitro. Our results show that Pmaz-pearlin is a well-conserved protein involved in nacre layer growth, which produces calcite crystals in the presence of CaCl2, aragonite crystal polymorphs with a hexagonal structure in the presence of MgCl2, and needle-like crystal structure polymorphs in the presence of CaCO3 The identity of the crystals was confirmed using RAMAN analyses.

Purification and functional analysis of the shell matrix protein N66 from the shell of the pearl oyster Pteria sterna.

Mollusk biomineralization is a process controlled by a complex interplay of proteins, ions and external regulators. In spite of several studies, there is a lack of knowledge of who (molecules involved), how (mechanism) and why (evolution and adaptation) mollusk are designed as we know them. In this study, a shell matrix protein, N66, has been purified and characterized biochemically from the shell of Pteria sterna. Two protein bands with carbohydrates associated were separated with a molecular weight of ~60 and 64 kDa. It has carbonic anhydrase activity and it is able to form crystal polymorphs of calcium carbonate in vitro. The mRNA N66 was obtained from the mantle tissue of Pteria sterna and the deduced amino acid sequence contained a carbonic anhydrase (CA) domain and a Asn/Gly-rich domain (aa243-439). The CA domain contained three His residues acting as zinc ligands and the gate-keeper residues present in all α-CAs (Glu166-Thr525), being thus similar to the human isoform hCAVII. Also, to test whether the posttranslational modifications present on the native N66 affects the CA activity and its crystallization capability in vitro, a recombinant N66 was overexpressed in Escherichia coli and functionally characterized. Our results show that recombinant N66 has higher CA activity and produce larger size crystals in vitro than the native N66 protein, suggesting that intrinsic properties of the native N66, such as glycosylations and/or phosphorylations, might regulate its activity.

Biochemical and molecular characterization of N66 from the shell of Pinctada mazatlanica.

Mollusk shell mineralization is a tightly controlled process made by shell matrix proteins (SMPs). However, the study of SMPs has been limited to a few model species. In this study, the N66 mRNA of the pearl oyster Pinctada mazatlanica was cloned and functionally characterized. The full sequence of the N66 mRNA comprises 1,766 base pairs, and encodes one N66 protein. A sequence analysis revealed that N66 contained two carbonic anhydrase (CA) domains, a NG domain and several glycosylation sites. The sequence showed similarity to the CA VII but also with its homolog protein nacrein. The native N66 protein was isolated from the shell and identified by mass spectrometry, the peptide sequence matched to the nucleotide sequence obtained. Native N66 is a glycoprotein with a molecular mass of 60-66 kDa which displays CA activity and calcium carbonate precipitation ability in presence of different salts. Also, a recombinant form of N66 was produced in Escherichia coli, and functionally characterized. The recombinant N66 displayed higher CA activity and crystallization capability than the native N66, suggesting that the lack of posttranslational modifications in the recombinant N66 might modulate its activity.

Phylogenetic placement and microthrix pattern of Paranybelinia otobothrioides Dollfus, 1966 (Trypanorhyncha) from krill Nyctiphanes simplex Hansen, 1911.

Plerocerci of the monotypic Paranybelinia otobothrioides were found parasitizing the subtropical neritic krill Nyctiphanes simplex in the Gulf of California, Mexico. The plerocerci were recovered from two microhabitats of the intermediate host, typically embedded inside the digestive gland (hepatopancreas) or rarely in the hemocoel. The morphology of the simple, single-layered blastocyst surrounding the entire scolex is unique within the Trypanorhyncha by having four large funnel-like pori or openings possibly with feeding and/or excretory function. One of the openings is located anteriorly and three at the posterior end. Scolex surface ultrastructure shows hamulate and lineate spinitriches covering the bothrial surface, capilliform filitriches at the anterior scolex end and on the scolex peduncle, and short papilliform filitriches on the long appendix. This pattern resembles that of species of the Tentaculariidae; but differs in that the hamulate spinitriches, which appear lineate at the bothrial margins, densely cover the entire distal bothrial surface. Tegumental grooves are present on the posterior bothrial margin, lacking spinitriches. Paranybelinia otobothrioides and Pseudonybelinia odontacantha share the following unique combination of characters: two bothria with free lateral and posterior bothrial margins, homeoacanthous homeomorphous armature, tegumental grooves, the distribution of the hamulate spinitriches, and the absence of prebulbar organs. Both genera infect euphausiids as intermediate hosts. Sequence data of the partial ssrDNA gene place Pa. otobothrioides sister to the family Tentaculariidae, and the Kimura two-parameters (K2P) distance between Pa. otobothrioides and species of the family Tentaculariidae ranged from 0.027 to 0.039 (44-62 nucleotide differences). These data suggest both species be recognized in a family, the Paranybeliniidae, distinct from, albeit as sister taxon to, the Tentaculariidae. High prevalence of infection (<14%) and ontogenetic changes of Pa. otobothrioides support N. simplex as a required intermediate host and suggest a zooplanktophagous elasmobranch as final host in the Gulf of California.

Seasonal seawater temperature as the major determinant for populations of culturable bacteria in the sediments of an intact mangrove in an arid region.

Mangroves are highly productive marine ecosystems where bacteria (culturable and non-culturable) actively participate in biomineralization of organic matter and biotransformation of minerals. This study explores spatial and seasonal fluctuations of culturable heterotrophic bacteria and Vibrio spp. in the sediments of an intact mangrove ecosystem and determines the dominant environmental factors that govern these fluctuations. Sediment samples were collected monthly from three stations in the mangroves of Laguna de Balandra, Baja California Sur, Mexico, through an annual cycle. Physicochemical parameters included seawater temperature, salinity, and concentration of dissolved oxygen. Viable counts of culturable heterotrophic bacteria and Vibrio spp. were made. In one sample (March 2003), nutrient concentrations (ammonium, nitrites, nitrates, and phosphates), organic matter, pH and sediment texture were also determined. General cluster analyses, analysis of variance of specific variables, and several principal component analyses demonstrated that seawater temperature is the principal determinant of seasonal distribution of culturable heterotrophic bacteria and Vibrio spp. in mangrove sediments. Soil texture, concentration of nutrients, and organic matter concentration contribute to heterogenicity to a lesser extent. A large spatial variation in bacterial populations was observed over short distances ( approximately 1 m) in sampling areas within the same site. These analyses show that the culturable bacterial distribution in sediments of mangroves has high spatial and temporal heterogeneity.

Genomics study of the exposure effect of Gymnodinium catenatum, a paralyzing toxin producer, on Crassostrea gigas' defense system and detoxification genes.

BACKGROUND: Crassostrea gigas accumulates paralytic shellfish toxins (PST) associated with red tide species as Gymnodinium catenatum. Previous studies demonstrated bivalves show variable feeding responses to toxic algae at physiological level; recently, only one study has reported biochemical changes in the transcript level of the genes involved in C. gigas stress response. PRINCIPAL FINDINGS: We found that 24 h feeding on toxic dinoflagellate cells (acute exposure) induced a significant decrease in clearance rate and expression level changes of the genes involved in antioxidant defense (copper/zinc superoxide dismutase, Cu/Zn-SOD), cell detoxification (glutathione S-transferase, GST and cytochrome P450, CPY450), intermediate immune response activation (lipopolysaccharide and beta glucan binding protein, LGBP), and stress responses (glutamine synthetase, GS) in Pacific oysters compared to the effects with the non-toxic microalga Isochrysis galbana. A sub-chronic exposure feeding on toxic dinoflagellate cells for seven and fourteen days (30×10³ cells mL⁻¹) showed higher gene expression levels. A significant increase was observed in Cu/Zn-SOD, GST, and LGBP at day 7 and a major increase in GS and CPY450 at day 14. We also observed that oysters fed only with G. catenatum (3×10³ cells mL⁻¹ produced a significant increase on the transcription level than in a mixed diet (3×10³ cells mL⁻¹ of G. catenatum+0.75×106 cells mL⁻¹ I. galbana) in all the analyzed genes. CONCLUSIONS: Our results provide gene expression data of PST producer dinoflagellate G. catenatum toxic effects on C. gigas, a commercially important bivalve. Over expressed genes indicate the activation of a potent protective mechanism, whose response depends on both cell concentration and exposure time against these toxic microalgae. Given the importance of dinoflagellate blooms in coastal environments, these results provide a more comprehensive overview of how oysters respond to stress generated by toxic dinoflagellate exposure.

Capillary electrophoresis finger print technique (CE-SSCP): an alternative tool for the monitoring activities of HAB species in Baja California Sur Costal.

In Mexican waters, there is no a formal and well-established monitoring program of harmful algal blooms (HAB) events. Until now, most of the work has been focused on the characterization of organisms present in certain communities. Therefore, the development of new techniques for the rapid detection of HAB species is necessary. Capillary electrophoresis finger print technique (CE-SSCP) is a fingerprinting technique based on the identification of different conformers dependent of its base composition. This technique, coupled with capillary electrophoresis, has been used to compare and identify different conformers. The aim of this study was to determine if CE-SSCP analysis of ribosomal RNA (rRNA) gene fragments could be used for a rapid identification of toxic and harmful HAB species to improve monitoring activities along the coasts of Baja California Sur, Mexico.Three different highly variable regions of the 18S and 28S rRNA genes were chosen and their suitability for the discrimination of different dinoflagellate species was assessed by CE-SSCP.The CE-SSCP results obtained for the LSU D7 fragment has demonstrated that this technique with this gene region could be useful for the identification of the ten dinoflagellates species of different genera.We have shown that this method can be used to discriminate species and the next step will be to apply it to natural samples to achieve our goal of molecular monitoring for toxic algae in Mexican waters. This strategy will offer an option to improve an early warning system of HAB events for coastal BCS, allowing the possible implementation of mitigation strategies. A monitoring program of HAB species using molecular methods will permit the analysis of several samples in a short period of time, without the pressure of counting with a taxonomic expert in phytoplankton taxonomy.

Darkedge midshipman Porichthys analis (Batrachoidiformes: Batrachoididae), a common shrimp-bycatch fish from the Gulf of California

Shrimp fishery bycatch of the Gulf of California constitutes a wide variety of highly unknown fish, crustacean, and mollusk species with very low or null economic value, in contrast to those of commercial interest. However, there are no studies yet on the role of these low economic valued species have in the community structure and function, together with their possible effect on commercial populations. With the aim of contributing to the knowledge of Darkedge Midshipman fish Porichthys analis, the most common waste species in this fishery, we estimated some population characteristics. For this purpose, we obtained shrimp-bycatch fish during the 2004-2005 fishing season and performed some research surveys. A total of 1 725 Darkedge Midshipman were captured from 350 bycatch samples. Individual size ranged from 43-352mm SL. The weight to standard length relationship was determined as W=0.000092SL3.0509. Von Bertalanffy’s growth coefficient indicated a moderate growth rate (K=0.5) with an estimated asymptotic length ofL∞=352mm standard length, and a longevity of 6yr. Natural mortality was estimated as 0.97 and total mortality as 4.67. The recruitment pattern, as estimated by ELEFAN II, was extended over the year, peaking during spring and summer seasons. Sexual proportion of male:female was 1.65:1. Mature organisms appeared from August to March, and length at maturity was 157mm SL, which is larger than the mean size at capture 135mm SL. We concluded that the species is indirectly protected by its own bathymetric distribution and the off-shrimping season. This is the first study that considers population characteristics from this common but still unknown species.

A diferencia de las especies de interés comercial, la historia de vida de los peces no comerciales es casi desconocida a pesar de su potencial importancia en la estructura y función de la comunidad. Para contribuir al conocimiento de estas especies se estimaron algunas características poblacionales del chupalodo Porcihchty sanalis. La fauna de acompañamiento de la pesquería del camarón en el Golfo de California está constituida por especies poco conocidas y de escaso valor comercial. Las especies de la familia Batrachoididae son frecuentemente utilizadas como animales experimentales, pero poco se sabe de P. analis. De esta manera a partir de la fauna de acompañamiento se recolectaron 1 725 organismos y se determinó la relación talla-peso W=0.000092SL3.0509. Mediante ELEFAN I, se estimó un crecimiento moderado (K=0.5/año) con una longitud asintótica mayor que la observada reportada anteriormente (L∞=352mm SL) y una longevidad de 6 años. La mortalidad natural se estimó en M=0.97 la total en Z=4.67. El patrón de reclutamiento fue mayor durante primavera-verano. La proporción sexual M:F fue 1.65:1 y la talla media de primera madurez fue de 157mm SL mayor que la talla media de captura 135mm SL. Este es el primer reporte que considera las características poblacionales de esta especie común, pero poco conocida.

Population parameters of the Pacific flagfin mojarra Eucinostomus currani (Perciformes: Gerreidae) captured by shrimp trawling fishery in the Gulf of California

Shrimp trawling fishery in the Gulf of California captures a wide variety of non-target species of fish, crustaceans, and mollusks that are relatively unknown. The Pacific flagfin mojarra Eucinostomus currani is a frequently found species in these catches, nevertheless, nothing is currently known about its population dynamics. To contribute to the knowledge on this fish species, we studied the size structure, growth, mortality, and the recruitment pattern during the 2004-2005 seasons. A total of 6 078 mojarra were captured from 350 samples, with minimum and maximum lengths of 4.5cm and a maximum of 21.0cm. The average total length of the four major cohorts was 11.4, 13.7, 15.6 and 18.0cm, corresponding to ages 0.9, 1.2, 1.6 and 2.2 years, respectively, being the most abundant the 1.2 year-old group. The instant growth coefficient indicated moderate growth rates (K S=0.81/year, K E=0.85/year), corresponding to individuals living between 3.5 to 3.7 years. The estimated asymptotic lengths was L∞=21.8cm. In general, the population could be considered healthy: natural mortality (M=1.53/year); total mortality (Z=2.73 /year); condition factor (K=0.01072); fishery mortality (F=1.2/ year) and exploitation rate (E=0.43/year). The maximum reproduction period almost coincided with the closed season for shrimp fishing (March to August), thus we concluded that survival of the species is ensured because reproduction is indirectly protected. Rev. Biol. Trop. 59 (2): 887-897. Epub 2011 June 01.

La pesquería de camarón del Golfo de California captura una amplia variedad de especies incidentales, relativamente no conocidas que incluye peces, crustáceos y moluscos. La mojarra bandera del Pacífico Eucinostomus currani es frecuentemente encontrada en las capturas del camarón y no hay información sobre su dinámica poblacional. La estructura de tallas, crecimiento, mortalidad y patrón de reclutamiento fueron determinados durante la temporada 2004-2005. De manera que se recolectaron 6 078 organismos de esta especie en 350 muestras, las tallas mínima y máxima fueron 4.5cm y 21.0cm. La talla media de las cuatro cohortes presentes fueron 11.4, 13.7, 15.6 y 18.0cm, correspondiendo a edades de 0.9, 1.2, 1.6 y 2.2 años. El coeficiente instantáneo de crecimiento indica un crecimiento moderado (KS=0.81/año, KE=0.85/año), con una longevidad de 3.5 años. La longitud asintótica estimada fue L∞=21.8cm. En general, la población se mostró saludable, con una mortalidad natural (M=1.53/año); factor de condición (K=0.01072); mortalidad total (Z=2.73 /año); mortalidad por pesca (F=1.2/año) y tasa de explotación (E=0.43/año). El periodo de máxima reproducción coincide con la temporada de veda de la pesca de camarón (marzo a agosto). Concluimos que la sobrevivencia de la especie se encuentra indirectamente protegida.

Cu,Zn superoxide dismutase in Rhodotorula and Udeniomyces spp. isolated from sea water: cloning and sequencing the encoding region.

The gene encoding the copper-zinc superoxide dismutase enzyme (SODC or Cu,Zn-SOD) has been cloned from several species of higher eukaryotes, but superoxide dismutase genes from moulds and yeast have not been studied extensively. Only 15 nucleotide sequences have been reported in the SwissProt, EMBL and GenBank data libraries. In general the presence of Cu,Zn-SOD in cytosol, as well as Mn-SOD in the mitochondrial matrix of yeast, has been accepted. The absence of Cu,Zn-SOD in a pigmented yeast has been accepted as a general rule. Some authors suggest that the absence of Cu,Zn-SOD in pigmented yeast is complemented by the presence of carotenoproteins that act as an extra mitochondrial antioxidant. In this report, we found that the absence of SODC is not a rule for pigmented yeast: Udeniomyces puniceus expresses an active SODC which responds to Cu(2+) induction, as has been reported previously for non-pigmented yeast. The encoding region of the sod1 gene was cloned from three species of pigmented marine yeast thorough genomic DNA PCR amplification. Fragments of 485-487 nucleotides were obtained, which contain information for theoretical products of 153-154 amino acids. In Rhodotorula mucilaginosa the deduced amino acid sequence shows that insertion of three bases (C(112), A(149) and C(166)) generates a stop codon at position 123 (TGA). For Rhodotorula graminis a single change (T for A) generates a stop codon at position 298. For both species, this non-transcription of encoding sequence correlates with the absence of peptides or active proteins in cell homogenates. For U. puniceus, the cloned nucleotide sequence contains all necessary information to produce a functional protein, which correlates with activity detected in cell homogenates, both under normal conditions and by copper induction experiments. Finally, we clearly showed that the key factor in protection against oxidative stress on pigmented yeast is related not only to the presence of protective pigments but also to their amounts and spectra, as well as the presence and activity of SODC.