David G. Mann

David G. Mann
Royal Botanic Garden Edinburgh · Department of Science

BSc, BA, PhD, DSc

About

416
Publications
131,655
Reads
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21,452
Citations
Citations since 2017
51 Research Items
7428 Citations
201720182019202020212022202302004006008001,0001,2001,400
201720182019202020212022202302004006008001,0001,2001,400
201720182019202020212022202302004006008001,0001,2001,400
201720182019202020212022202302004006008001,0001,2001,400
Introduction
Currently focusing on metabarcoding to investigate geographical distributions and ecological differentiation within and among diatom species. Continuing interests in diatom speciation and systematics. Increasingly concerned with transmission of expertise.
Additional affiliations
February 2014 - present
IRTA Institute of Agrifood Research and Technology
Position
  • Researcher

Publications

Publications (416)
Article
Three benthic diatom species – Diademoides luxuriosa, Navicula entoleia and Nitzschia ocellata – have been discovered for the first time in Scottish coastal waters. All are highly distinctive but rarely recorded, with less than 100 mentions found worldwide in an exhaustive search of the literature, even after taking into account possible synonyms....
Article
Two short diatom rbcL barcodes, 331-bp and 263-bp in length, have frequently been used in diatom metabarcoding studies. They overlap in a common 263-bp region but differ in the presence or absence of a 68-bp tail at the 5′ end. Though the effectiveness of both has been demonstrated in separate biomonitoring and diversity studies, the impact of the...
Article
Full-text available
Recent advances in molecular biomonitoring open new horizons for aquatic ecosystem assessment. Rapid and cost-effective methods based on organismal DNA or environmental DNA (eDNA) now offer the opportunity to produce inventories of indicator taxa that can subsequently be used to assess biodiversity and ecological quality. However, the integration o...
Article
Full-text available
In contrast to surveys based on a few genes that often provide limited taxonomic resolution, transcriptomes provide a wealth of genomic loci that can resolve relationships among taxonomically challenging lineages. Diatoms are a diverse group of aquatic microalgae that includes important bioindicator species and many such lineages. One example is Ni...
Preprint
Full-text available
In contrast to surveys based on a few genes that often provide limited taxonomic resolution, transcriptomes provide a wealth of genomic loci that can resolve relationships among taxonomically challenging lineages. Diatoms are a diverse group of aquatic microalgae that includes important bioindicator species and many such lineages. One example is Ni...
Article
Full-text available
Groundwater pollution has increased in recent years due to the intensification of agricultural and livestock activities. This results in a significant reduction in available freshwater resources. Here, we have studied the long term assessment of a green technology (1–4 L/day) based on a photobioreactor (PBR) containing immobilised microalgae–bacter...
Article
We investigated the advantages and disadvantages of light microscope (LM)-based identifications and DNA metabarcoding, based on a 312-bp rbcL marker, for examining benthic diatom communities from Mediterranean shallow coastal environments. For this, we used biofilm samples collected from different substrata in the Ebro delta bays. We show that 1) E...
Article
Our study evaluates differences in the distribution and ecology of genetic variants within several ecologically important diatom species that are also key for Water Framework Directive monitoring of European rivers: Fistulifera saprophila (FSAP), Achnanthidium minutissimum (ADMI), Nitzschia inconspicua (NINC) and Nitzschia soratensis (NSTS). We use...
Article
Diatoms belonging to the family Epithemiaceae have endosymbiont ‘spheroid bodies’, which have received attention as a model to provide new insights into the early stages of organelle evolution. Uniparental organelle inheritance, known in a wide range of sexually reproducing eukaryotes, is considered to be one of the key characteristics acquired dur...
Poster
Full-text available
Diatoms are unicellular eukaryotic organisms, which have been exploited over the years for effective freshwater bioassessment. Therefore, they are excellent bioindicators, routinely used in national environmental monitoring programs all over Europe within the Water Framework Directive (WFD) 2000/60 /EC (Foster et al., 2000) and CEN standards (CEN,...
Article
Full-text available
Diatoms (Bacillariophyta) are ubiquitous microalgae, which present a huge taxonomic diversity, changing in correlation with differing environmental conditions. This makes them excellent ecological indicators for various ecosystems and ecological problematics (ecotoxicology, biomonitoring, paleo-environmental reconstruction …). Current standardized...
Article
Full-text available
We applied DNA metabarcoding to evaluate the ecology of genetic variants within several diatom species that are important for biomonitoring. Benthic diatoms are widely used as bioindicators for biomonitoring programmes, including those for European rivers demanded by Water Framework Directive (WFD). Morphological identification of diatoms at specie...
Article
Full-text available
Recent metabarcoding work in European rivers, including our own studies of Mediterranean rivers in Catalonia (Pérez-Burillo et al. 2020), has shown promising agreement between morphology- (LM) and DNA-based (HTS) assessments of diatom periphyton for the Water Framework Directive. However, in 10 out of the 164 Catalan sites we analysed, the ecologic...
Article
Full-text available
DNA barcoding and metabarcoding is increasingly used to effectively and precisely assess and monitor biodiversity in aquatic ecosystems. As these methods rely on data availability and quality of barcode reference libraries, it is important to develop and follow best practices to ensure optimal quality and traceability of the metadata associated wit...
Article
Fundamental differences in the nature of diatom assemblage composition data generated using light microscopy and molecular barcoding create problems when applying current paradigms and metrics developed for ecological assessment. We therefore describe the development of a new metric designed specifically for diatom rbcL barcode data gathered using...
Article
The paraphyletic diatom genus Nitzschia comprises over 1000 morphologically distinct pennate taxa, known from the benthos and plankton of freshwater, brackish and marine environments. The principal diagnostic characters for delimitation of Nitzschia species include valve shape, the position and structure of the raphe, presence/absence and shape of...
Article
The Bacillariaceae is a very species-rich family of raphid diatoms and includes the large and taxonomically difficult genus Nitzschia, whose species are often small-celled and finely structured and have few discrete morphological characters visible in the light microscope. The classification of Nitzschia is still mostly based on one developed in th...
Article
Full-text available
Diatoms are an ecologically fundamental and highly diverse group of algae, dominating marine primary production in both open-water and coastal communities. The diatoms include both centric species, which may have radial or polar symmetry, and the pennates, which include raphid and araphid species and arose within the centric lineage. Here, we use c...
Article
Our study of 164 diatom samples from Catalonia (NE Spain) is the first to evaluate the applicability of DNA metabarcoding, based on high throughput sequencing (HTS) using a 312-bp rbcL marker, for biomonitoring Mediterranean rivers. For this, we compared the values of a biotic index (IPS) and the ecological status classes derived from them, between...
Article
Detailed morphological documentation is provided for established Proschkinia taxa, including the generitype, P. bulnheimii, and P. complanata, P. complanatula, P. complanatoides and P. hyalosirella, and six new species. All established taxa are characterized from original material from historical collections. The new species described in this paper...
Article
A new species of Sellaphora was found in modern and fossil sediments from shallow-lake Laguna Gemelas Este, Santa Cruz, Argentina. The new taxon was studied with light microscopy and scanning electron microscopy. We present a detailed analysis of its morphology, supporting its placement in the genus Sellaphora Mereschkowsky, and report the physico-...
Article
A new species of Sellaphora was found in modern and fossil sediments from shallow-lake Laguna Gemelas Este, Santa Cruz, Argentina. The new taxon was studied with light microscopy and scanning electron microscopy. We present a detailed analysis of its morphology, supporting its placement in the genus Sellaphora Mereschkowsky, and report the physico-...
Article
Full-text available
Nitzschia is common in the phytoplankton of several East African lakes. A new species, Nitzschia fenestralis, sp. nov. D. Grady, D.G. Mann et Trobajo was encountered at numerous depths in a 16 m sediment core from Lake Babogaya, Ethiopia and is described using light and scanning electron microscopy. It is compared with several other morphologically...
Article
Full-text available
Diatoms (Bacillariophyta) are ubiquitous microalgae which produce a siliceous exoskeleton and which make a major contribution to the productivity of oceans and freshwaters. They display a huge diversity, which makes them excellent ecological indicators of aquatic ecosystems. Usually, diatoms are identified using characteristics of their exoskeleton...
Article
Full-text available
A monophyletic group of dinoflagellates, called ‘dinotoms’, are known to possess evolutionarily intermediate plastids derived from diatoms. The diatoms maintain their nuclei, mitochondria, and the endoplasmic reticulum in addition with their plastids, while it has been observed that the host dinoflagellates retain the diatoms permanently by control...
Article
We describe here a protocol for cleaning diatoms when time is short and the amount of sample is very limited. Essentially, the method consists of drying material onto coverslips and cleaning it directly in situ using nitric acid (or hydrogen peroxide), which is evaporated to dryness. After washing twice or a few times with deionized water, the cove...
Article
Full-text available
Background and aims – The eutrophic Blackford Pond in Edinburgh has already provided the holotypes of six other Sellaphora species. A further undescribed species is present and requires description and characterization. Methods – Clones of the new species are characterized by light (LM) and scanning electron microscopy (SEM) and molecular phylogene...
Article
Full-text available
Background and aims – The diatom genus Simonsenia has been considered for some time a minor taxon, limited in its distribution to fresh and slightly brackish waters. Recently, knowledge of its diversity and geographic distribution has been enhanced with new species described from brackish-marine waters of the southern Iberian Peninsula and from inl...
Chapter
This chapter contains sections titled:IntroductionCentric DiatomsPennate Diatom Life Cycles and ReproductionAuxospore Development and StructureInduction of Sexual ReproductionAcknowledgments
Article
This paper explores the diversity and taxonomy of species within Fragilaria sensu stricto, an abundant and ecologically important diatom genus, taking advantage of cultured and DNA‐barcoded material. The goal is to facilitate identification of European taxa within this complex, providing a unified view on morphological and molecular diversity. Ther...
Article
This revision of the classification of eukaryotes follows that of Adl et al., 2012[J. Euk. Microbiol.59(5)] and retains an emphasis on protists. Changes since have improved the resolution of many nodes in phylogenetic analyses. For some clades even families are being clearly resolved. As we had predicted,environmental sampling in the intervening ye...
Article
Full-text available
The species-rich diatom family Chaetocerotaceae is common in the coastal marine phytoplankton worldwide where it is responsible for a substantial part of the primary production. Despite its relevance for the global cycling of carbon and silica, many species are still described only morphologically, and numerous specimens do not fit any described ta...
Article
Full-text available
We obtained the complete mitogenome of Proschkinia sp. strain SZCZR1824, a strain belonging to a poorly known diatom genus with no previous molecular data. This genome is 48,863 bp long, with two group I introns in rnl and three group II introns in cox1. Using mitogenomic data, Proschkinia sp. was recovered with Fistulifera solaris, far distant fro...
Article
Full-text available
This revision of the classification of eukaryotes follows that of Adl et al., 2012 [J. Euk. Microbiol. 59(5)] and retains an emphasis on protists. Changes since have improved the resolution of many nodes in phylogenetic analyses. For some clades even families are being clearly resolved. As we had predicted, environmental sampling in the intervening...
Article
Some traditional diatom species have long been considered ‘cosmopolitan’, i.e., they are ubiquitous in suitable habitats. However molecular methods have revealed that some of these diatoms are complexes consisting of a few or many species, whose identification by eye with LM is difficult or impossible. This is true of several groups within Pinnular...
Article
Diatoms are used routinely to assess pollution level in rivers and lakes. Current methods are based on identification by light microscopy, which is laborious. An alternative is to identify species based on short DNA fragments and High–Throughput Sequencing (HTS). However a potential limitation is the incomplete coverage of species in reference barc...
Book
Full-text available
A DNA based metabarcoding approach to assess diatom communities in rivers Project summary SC140024 This project has established a novel, DNA based method to monitor and assess the make-up of diatom communities in rivers. We report the results of the first large scale development and testing of a metabarcoding method (Figure 1); combining DNA barco...
Article
Diploneis species have perhaps the most complex valve structure among pennate diatoms. The development of this structure was studied in D. smithii and begins with the formation of a primary band, which then develops secondary arms at both poles and the center, as in the classic Chiappino–Volcani model of raphid diatom ontogeny. Spine-like projectio...
Chapter
The diatoms (Bacillariophyta) are the most species-rich group of autotrophic algae, found in fresh, brackish, and marine waters worldwide, and also in damp terrestrial habitats. They are well represented in marine phytoplankton and may account for 20% of global photosynthetic carbon fixation. However, the vast majority of the estimated 100,000 spec...
Poster
Full-text available
The website ‘Diatom Flora of Britain and Ireland’ is an online identification tool for researchers with an interest in diatom taxonomy and ecology. It documents taxa found in Britain and Ireland using light and electron microscope images and incorporates recent taxonomic revisions. The website is hosted by Amgueddfa Cymru – National Museum Wales (h...
Chapter
The diatoms (Bacillariophyta) are the most species-rich group of autotrophic algae, found in fresh, brackish, and marine waters worldwide, and also in damp terrestrial habitats. They are well represented in marine phytoplankton and may account for 20% of global photosynthetic carbon fixation. However, the vast majority of the estimated 100,000 spec...
Article
Full-text available
Syllabus of Plant Families. A. Engler's Syllabus der Pflanzenfamilien, 13th edition. Part 2/1: Photoautotrophic Eukaryotic Algae. Glaucocystophyta, Cryptophyta, Dinophyta/Dinozoa, Haptophyta, Heterokontophyta/Ochrophyta, Chlorarachniophyta/ Cercozoa, Euglenophyta/Euglenozoa, Chlorophyta, Streptophyta p.p. W. Frey (ed.). Stuttgart: Borntraeger Scien...
Article
A previously unknown member of the Bacillariaceae was discovered almost simultaneously in four different brackish coastal wetlands on the Atlantic and Mediterranean coasts of the Iberian Peninsula. It appears to tolerate a wide range of salinities but was never common in samples where it occurred. The frustules were consistently hantzschioid (i.e....
Article
The focus of this paper is the sexual reproduction and phylogeny of Schizostauron Grunow, which were studied using clonal cultures isolated from the Indian Ocean coast of Mozambique near Tofo and Bazaruto. Taxa of Schizostauron were characterized by light and electron microscopy and a phylogeny derived from three genes (rbcL, psbC and short subunit...
Article
Full-text available
The Melbourne Congress of 2011 authorized a Special Committeeon Registration of Algal and Plant Names (including fossils), whichwas established the following year (Wilson in Taxon 61: 878–879.2012). Its explicit mandate was “to consider what would be involved inregistering algal and plant names (including fossils), using a procedureanalogous to tha...
Article
Full-text available
The Special Committee on Registration of Algal and Plant Names (including fossils) was established at the XVIII International Botanical Congress (IBC) in Melbourne in 2011, its mandate being to consider what would be involved in registering algal and plant names (including fossils), using a procedure analogous to that for fungal names agreed upon i...
Article
Full-text available
The genus Simonsenia is reviewed and S. aveniformis described as new for science by light and electron microscopy. The new species originated from estuarine environments in southern Iberia (Atlantic coast) and was isolated into culture. In LM, Simonsenia resembles Nitzschia, with bridges (fibulae) beneath the raphe, which is marginal. It is only el...
Article
Full-text available
The identity and nomenclatural history of several small–celled naviculoid taxa are revisited. The species discussed here are important from the ecological point of view since they are often dominant in benthic freshwater communities. The original concepts of several species that have suffered major taxonomic drift due to their entangled nomenclatur...
Article
Life cycle variations in the morphological and behavioral traits of modern pennate diatoms are known for a wide variety of genera and it is assumed that patterns of asexual and sexual reproduction (e.g. size reduction and auxosporulation) have remained essentially unchanged since their origin. We show here that many characteristics of modern pennat...
Article
Given their large population sizes and presumed high dispersal capacity, protists are expected to exhibit homogeneous population structure over large spatial scales. On the other hand, the fragmented and short-lived nature of the lentic freshwater habitats that many protists inhabit promotes strong population differentiation. We used microsatellite...