scholarly journals Species Delimitation and Conservation in Taxonomically Challenging Lineages: The Case of Two Clades of Capurodendron (Sapotaceae) in Madagascar

Plants ◽  
2021 ◽  
Vol 10 (8) ◽  
pp. 1702
Author(s):  
Carlos G. Boluda ◽  
Camille Christe ◽  
Aina Randriarisoa ◽  
Laurent Gautier ◽  
Yamama Naciri
Keyword(s):  
Conservation Status ◽  
The Other ◽  
Genetic Admixture ◽  
Putative Hybrid ◽  
Illegal Logging ◽  
Conservation Assessment ◽  
Protein Coding ◽  
Test Species ◽  
Species Complexes ◽  
Genetic Pools

Capurodendron is the largest endemic genus of plants from Madagascar, with around 76% of its species threatened by deforestation and illegal logging. However, some species are not well circumscribed and many of them remain undescribed, impeding a confident evaluation of their conservation status. Here we focus on taxa delimitation and conservation of two species complexes within Capurodendron: the Arid and Western complexes, each containing undescribed morphologies as well as intermediate specimens alongside well-delimited taxa. To solve these taxonomic issues, we studied 381 specimens morphologically and selected 85 of them to obtain intergenic, intronic, and exonic protein-coding sequences of 794 nuclear genes and 227 microsatellite loci. These data were used to test species limits and putative hybrid patterns using different approaches such as phylogenies, PCA, structure analyses, heterozygosity level, FST, and ABBA-BABA tests. The potential distributions were furthermore estimated for each inferred species. The results show that the Capurodendron Western Complex contains three well-delimited species, C. oblongifolium, C. perrieri, and C. pervillei, the first two hybridizing sporadically with the last and producing morphologies similar to, but genetically distinct from C. pervillei. The Arid Complex shows a more intricate situation, as it contains three species morphologically well-delimited but genetically intermixed. Capurodendron mikeorum nom. prov. is shown to be an undescribed species with a restricted distribution, while C. androyense and C. mandrarense have wider and mostly sympatric distributions. Each of the latter two species contains two major genetic pools, one showing interspecific admixture in areas where both taxa coexist, and the other being less admixed and comprising allopatric populations having fewer contacts with the other species. Only two specimens out of 172 showed clear genetic and morphological signals of recent hybridization, while all the others were morphologically well-delimited, independent of their degree of genetic admixture. Hybridization between Capurodendron androyense and C. microphyllum, the sister species of the Arid Complex, was additionally detected in areas where both species coexist, producing intermediate morphologies. Among the two complexes, species are well-defined morphologically with the exception of seven specimens (1.8%) displaying intermediate patterns and genetic signals compatible with a F1 hybridization. A provisional conservation assessment for each species is provided.

scholarly journals Comparative analysis and phylogenetic investigation of Hong Kong Ilex chloroplast genomes

2021 ◽  
Vol 11 (1) ◽  
Author(s):  
Bobby Lim-Ho Kong ◽  
Hyun-Seung Park ◽  
Tai-Wai David Lau ◽  
Zhixiu Lin ◽  
Tae-Jin Yang ◽  
...  
Keyword(s):  
Hong Kong ◽  
Comparative Analysis ◽  
Phylogenetic Relationships ◽  
Species Level ◽  
The Other ◽  
Trna Genes ◽  
Protein Coding ◽  
Chloroplast Genomes ◽  
Plant Group ◽  
Ilex Rotunda

AbstractIlex is a monogeneric plant group (containing approximately 600 species) in the Aquifoliaceae family and one of the most commonly used medicinal herbs. However, its taxonomy and phylogenetic relationships at the species level are debatable. Herein, we obtained the complete chloroplast genomes of all 19 Ilex types that are native to Hong Kong. The genomes are conserved in structure, gene content and arrangement. The chloroplast genomes range in size from 157,119 bp in Ilex graciliflora to 158,020 bp in Ilex kwangtungensis. All these genomes contain 125 genes, of which 88 are protein-coding and 37 are tRNA genes. Four highly varied sequences (rps16-trnQ, rpl32-trnL, ndhD-psaC and ycf1) were found. The number of repeats in the Ilex genomes is mostly conserved, but the number of repeating motifs varies. The phylogenetic relationship among the 19 Ilex genomes, together with eight other available genomes in other studies, was investigated. Most of the species could be correctly assigned to the section or even series level, consistent with previous taxonomy, except Ilex rotunda var. microcarpa, Ilex asprella var. tapuensis and Ilex chapaensis. These species were reclassified; I. rotunda was placed in the section Micrococca, while the other two were grouped with the section Pseudoaquifolium. These studies provide a better understanding of Ilex phylogeny and refine its classification.

Pimpinella ibradiensis (Apiaceae), an unusual new species from Turkey

Phytotaxa ◽  
2015 ◽  
Vol 217 (2) ◽  
pp. 164 ◽  
Author(s):  
İlker Çinbilgel ◽  
özkan Eren ◽  
Hayri Duman ◽  
Mustafa Gökceoğlu
Keyword(s):  
New Species ◽  
Geographical Distribution ◽  
Related Species ◽  
Conservation Status ◽  
Identification Key ◽  
The Other ◽  
Site Conditions ◽  
Closely Related Species

Pimpinella ibradiensis, an unusual new species found in the Toka Yayla (İbradı, Antalya) in southern Anatolia, is described and illustrated. Site conditions, synecology and conservation status of P. ibradiensis are considered. In light of the comparison with the other closely related four species, namely P. nephrophylla, P. flabellifolia, P. sintenisii and P. paucidentata, its similarity within the genus are discussed. P. ibradiensis is easly distinguished from its relatives by its white petals, presence of bracts and bracteoles, larger fruits (4–5.5 × 1–2 mm), and having serrulate basal leaves with 60–95 strongly cartilaginous teeth along margins. The geographical distribution of P. ibradiensis and closely related species are mapped and the identification key of those species is updated.

Synopsis of Cnidoscolus (Euphorbiaceae) in midwestern Brazil, including taxonomic updates, a new species, and a reestablishment of C. neglectus

Phytotaxa ◽  
2021 ◽  
Vol 500 (3) ◽  
pp. 179-200
Author(s):  
CELLINI CASTRO DE OLIVEIRA ◽  
ANDRÉ LAURÊNIO DE MELO ◽  
MARCOS JOSÉ DA SILVA
Keyword(s):  
New Species ◽  
Geographic Distribution ◽  
Conservation Status ◽  
Systematic Position ◽  
The Other ◽  
Dichotomous Key ◽  
Distributional Information ◽  
A New Species

A synopsis of the genus Cnidoscolus is presented for the midwestern region of Brazil, which resulted from the analysis of about 1,200 specimens from 62 national and foreign herbaria, including type collections. Observations of populations in field were also made. Nine species are recognized, one of which, C. mcvaughii, is new to science. It is described and illustrated, and comments about its geographic distribution, morphological relationships, systematic position, phenology, and conservation status are provided, as well as images and a map. The other species are contrasted by a dichotomous key. Also, distributional information, maps, conservation evaluations, images and morphologically diagnoses are included. Eight synonymizations, one lectotypification, a neotypifcation, and the re-establishment of C. neglectus are proposed.

scholarly journals Rediscovery of Scorzonera amasiana Hausskn. and Bornm. - A threatened endemic species in Turkey

1970 ◽  
Vol 36 (2) ◽  
pp. 139-144 ◽  
Author(s):  
Fergan Karaer ◽  
Ferhat Celep
Keyword(s):  
Endemic Species ◽  
Human Impacts ◽  
Conservation Status ◽  
The Other ◽  
Conservation Strategies ◽  
Small Populations ◽  
Distribution Map ◽  
Type Specimens ◽  
Current Conservation ◽  
Iucn Criteria

Scorzonera amasiana Hausskn. and Bornm. was described from type specimens collected by J.F.N. Bornmueller in 1889 but it was not collected again until 1993, when it was found near Amasya, Turkey. Populations of S. amasiana were quite small at that limited locations and were vulnerable to human impacts. Therefore, suitable conservation strategies should be developed immediately in order to protect the species from probable extinction. Here, an additional three small populations are reported. Brief history, morphology, habitat and ecology of this endemic species have been discussed. Its current conservation status was reevaluated with respect to the latest IUCN criteria. A key to distinguish it from the other closely related Turkish species is also provided and its distribution map is appended.   Key words: Endangered, Rediscovery, Scorzonera, Turkey DOI = 10.3329/bjb.v36i2.1502 Bangladesh J. Bot. 36(2): 139-144, 2007 (December)

scholarly journals Co-occurring cryptic species pose challenges for conservation: a case study of the African dwarf crocodile (Osteolaemusspp.) in Cameroon

Oryx ◽  
2014 ◽  
Vol 49 (4) ◽  
pp. 584-590 ◽  
Author(s):  
Nicole L. Smolensky
Keyword(s):  
Cryptic Species ◽  
Conservation Status ◽  
Taxonomic Revision ◽  
Single Species ◽  
Conservation Strategies ◽  
Encounter Rates ◽  
Distribution Maps ◽  
Species Complexes ◽  
Threatened Taxa ◽  
Population Structures

AbstractThe conservation status of threatened taxa may be obfuscated by the detection of cryptic species complexes, in both vertebrate and invertebrate species. African dwarf crocodiles (Osteolaemusspp.) are hunted throughout their range but their conservation status is unknown. Few population assessments have been carried out and there has been a taxonomic revision of the number of species in the genus. The similar morphologies ofOsteolaemus tetraspisandOsteolaemus osbornipose a challenge for conservation in Cameroon, where they are still managed as a single species. Nocturnal spotlight surveys were conducted in three regions during August–November 2010 and December 2011–February 2012 to provide population assessments ofO. tetraspisandO. osborniand raise awareness of the two species in Cameroon. The mean encounter rates ofO. tetraspisandO. osborniwere 1.02 ± SD 1.34 (65 individuals in 39 surveys) and 0.61 ± SD 0.38 (three in four surveys) crocodiles per km, respectively. TheO. tetraspispopulation comprised juveniles predominantly and had a male-biased sex ratio. The fewO. osbornidetected comprised both adults and juveniles. Both species are threatened in Cameroon, based on low encounter rates, young population structures and the threats of habitat loss and hunting pressure. This study provides distribution maps and serves as a baseline to quantify population trends and inform conservation strategies.

scholarly journals Distribution of naked amoebae in the soils of the steppe zone of Ukraine

2020 ◽  
pp. 159-166
Author(s):  
M. Patsyuk ◽  
Keyword(s):  
Cluster Analysis ◽  
Multidimensional Scaling ◽  
Species Complex ◽  
Steppe Zone ◽  
Common Species ◽  
Molecular Clusters ◽  
The Other ◽  
Steppe Region ◽  
Species Complexes ◽  
Naked Amoebae

As a result of the study, in the steppe zone of Ukraine (Odessa, Mykolaiv, Kirovohrad region), 12 species of naked amoebas were identified, which according to the modern Eukaryot system belong to three molecular clusters Tubulinea Smirnov et al., 2005, Discosea Cavalier-Smith, 2004., Discoba Simpson and Hampl et al., 2009. This species Vahlkampfia sp. (1), Vahlkampfia sp. (2), Deuteramoeba mycophaga Page, 1988, Saccamoeba stagnicola Page, 1974, Vexillifera sp., Vannella sp. Ripellaplatypodia Smirnov, Nassonova, Chao et Cavalier-Smith, 2007, Cochliopodium sp. (1), Mayorella sp., Thecamoeba striata Penard, 1890, Stenamoeba stenopodia (Page, 1969) Smirnov et al., 2007, Acanthamoeba sp. (1). In the studied steppe soils, the most common were Vahlkampfia sp. (2), S. stenopodia, Vahlkampfia sp. (1), Vexillifera sp., Cochliopodium sp. (1); the least common – R. platypodia, D. mycophaga, T. striata, Mayorella sp. As a result of the cluster analysis, it was found that the largest share of common species is observed between Mykolaiv and Kirovograd regions (0.71) and Odessa and Kirovograd regions (0.53); the smallest is between the Odessa and Mykolaiv regions (0.43). According to the results of cluster analysis, the faunistic complexes of soil species of amoebae of the steppe region of Ukraine are united into two clusters: one of them being complexes characteristic of the Odessa region, and the other complexes of the Mykolaiv and Kirovograd regions. According to the results of nonparametric multidimensional scaling, it is established that the species complex of soil amoebae in the Kirovograd and Mykolaiv regions is determined by the increased soil temperature and acidity, compared to the Odessa region. As for moisture, this factor has little effect on the species complexes amoebae steppe region of Ukraine.

Four new species of Phrynus, Lamarck (Arachnida: Amblypygi) from Mexico

Zootaxa ◽  
2021 ◽  
Vol 4948 (2) ◽  
pp. 151-183
Author(s):  
DANIEL CHIRIVI JOYA
Keyword(s):  
New Species ◽  
Species Complex ◽  
Population Studies ◽  
The Other ◽  
Genetic Population ◽  
Male And Female ◽  
Taxonomic Information ◽  
Species Complexes ◽  
Morphologic Variation ◽  
Mexican Species

Mexico is the country with the largest diversity of the genus Phrynus (Amblypygi: Phrynidae); however, many species could remain hidden due to the conservative morphology of the group. Two of the Mexican species, P. operculatus, and P. jalisco show enough variation, between populations from different localities, to be considered as possible species complexes. The scarce taxonomic information of these species and the few analyses of their variation could cause misidentifications and sub estimation of the diversity. Specimens morphologically similar to P. operculatus from different Mexican localities were analyzed, using characters from the male and female genitals. Four new species are described, presenting illustrations of SEM for the male genitals. Details of the morphologic variation in this group of species are discussed, as well as the usefulness of sexual characters like the size proportions, and sclerotization in the female gonopods, and ornaments in males, to improve the diagnoses of the Mexican Phrynus. The known distribution of P. operculatus is large in comparison with those of the other species, after the result of this research, the possibility that it is a larger species complex is evident, thus, it is necessary to increase the morphologic and genetic population studies in this group. 

scholarly journals Identification of a Natural Hybrid between Castanopsis sclerophylla and Castanopsis tibetana (Fagaceae) Based on Chloroplast and Nuclear DNA Sequences

Forests ◽  
2020 ◽  
Vol 11 (8) ◽  
pp. 873
Author(s):  
Xiaorong Zeng ◽  
Risheng Chen ◽  
Yunxin Bian ◽  
Xinsheng Qin ◽  
Zhuoxin Zhang ◽  
...  
Keyword(s):  
Dna Sequences ◽  
Nuclear Dna ◽  
Genetic Admixture ◽  
Natural Hybrid ◽  
Hybrid Species ◽  
Chloroplast Haplotype ◽  
Flora Of China ◽  
Nuclear Microsatellite ◽  
Chloroplast Dna Sequences ◽  
Genetic Pools

Castanopsis × kuchugouzhui Huang et Y. T. Chang was recorded in Flora Reipublicae Popularis Sinicae (FRPS) as a hybrid species on Yuelushan mountain, but it is treated as a hybrid between Castanopsis sclerophylla (Lindl.) Schott. and Castanopsis tibetana Hance in Flora of China. After a thorough investigation on Yuelushan mountain, we found a population of C. sclerophylla and one individual of C. × kuchugouzhui, but no living individual of C. tibetana. We collected C. × kuchugouzhui, and we sampled 42 individuals of C. sclerophylla from Yuelushan and Xiushui and 43 individuals of C. tibetana from Liangyeshan and Xiushui. We used chloroplast DNA sequences and 29 nuclear microsatellite markers to investigate if C. × kuchugouzhui is a natural hybrid between C. sclerophylla and C. tibetana. The chloroplast haplotype analysis showed that C. × kuchugouzhui shared haplotype H2 with C. sclerophylla on Yuelushan. The STRUCTURE analysis identified two distinct genetic pools that corresponded well to C. sclerophylla and C. tibetana, revealing the genetic admixture of C. × kuchugouzhui. Furthermore, the NewHybrids analysis suggested that C. × kuchugouzhui is an F2 hybrid between C. sclerophylla and C. tibetana. Our results confirm that C. × kuchugouzhui recorded in FRPS is a rare hybrid between C. sclerophylla and C. tibetana.

Morphological, phytochemical and molecular analyses define species limits in Eucalyptus magnificata (Myrtaceae) and lead to the discovery of a new rare species

2019 ◽  
Author(s):  
Timothy L. Collins ◽  
Rose L. Andrew ◽  
Jeremy J. Bruhl
Keyword(s):  
New England ◽  
Conservation Status ◽  
Strong Support ◽  
Full Description ◽  
Species Limits ◽  
Single Nucleotide ◽  
Test Species ◽  
Field Collection ◽  
Snp Data ◽  
Eastern Australia

Abstract. Eucalyptus magnificata L.A.S.Johnson & K.D.Hill is an endangered species endemic to the New England Tablelands Bioregion of eastern Australia, with taxonomic conflict regarding its recognition. Analyses of morphology, phytochemistry and genomic DNA were used to test species limits of E. magnificata. Morphometric and phytochemical phenetic analyses found distinct differences among E. magnificata, E. baueriana and a putative entity recognised during field collection, i.e. E. sp. Dalveen. Another putative entity, E. sp. Oxley, was morphologically and phytochemically intermediate between E. magnificata and E. conica. Phenetic analysis of single-nucleotide polymorphism (SNP) data supported the results from morphological and phytochemical analyses. The original circumscription of E. magnificata, as distinct from E. baueriana, was strongly corroborated. Eucalyptus magnificata was found to be restricted in distribution to the Macleay Gorges area south-east of Armidale. Multiple lines of evidence provided strong support for the recognition of E. sp. Dalveen as a separately evolving entity at a species level, here described as Eucalyptus dalveenica T.L.Collins, R.L.Andrew & J.J.Bruhl. A full description of the new species, a table distinguishing E. dalveenica from closely related taxa, and an identification key are provided. Distribution, habitat and conservation status are discussed.

scholarly journals The complete chloroplast genome sequences of five pinnate-leaved Primula species and phylogenetic analyses

2020 ◽  
Vol 10 (1) ◽  
Author(s):  
Wenbin Xu ◽  
Boshun Xia ◽  
Xinwei Li
Keyword(s):  
Ribosomal Rna ◽  
Phylogenetic Analyses ◽  
Distinct Species ◽  
The Other ◽  
Trna Genes ◽  
Protein Coding ◽  
Complete Chloroplast Genome ◽  
Noncoding Sequences ◽  
Chloroplast Genomes ◽  
Rna Genes

AbstractThe six pinnate-leaved species are a very particular group in the genus Primula. In the present paper, we sequenced, assembled and annotated the chloroplast genomes of five of them (P. cicutarrifolia, P. hubeiensis, P. jiugongshanensis, P. merrilliana, P. ranunculoides). The five chloroplast genomes ranged from ~ 150 to 152 kb, containing 113 genes (four ribosomal RNA genes, 29 tRNA genes and 80 protein-coding genes). The six pinnate-leaved species exhibited synteny of gene order and possessed similar IR boundary regions in chloroplast genomes. The gene accD was pseudogenized in P. filchnerae. In the chloroplast genomes of the six pinnate-leaved Primula species, SSRs, repeating sequences and divergence hotspots were identified; ycf1 and trnH-psbA were the most variable markers among CDSs and noncoding sequences, respectively. Phylogenetic analyses showed that the six Primula species were separated into two distant clades: one was formed by P. filchnerae and P. sinensis and the other clade was consisting of two subclades, one formed by P. hubeiensis and P. ranunculoides, the other by P. merrilliana, P. cicutarrifolia and P. jiugongshanensis. P. hubeiensis was closely related with P. ranunculoides and therefore it should be placed into Sect. Ranunculoides. P. cicutarrifolia did not group first with P. ranunculoides but with P. merrilliana, although the former two were once united in one species, our results supported the separation of P. ranunculoides from P. cicutarrifolia as one distinct species.

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