The jewel orchids (Goodyerinae), named after their often colourful leaves, have a pantropical distribution with a clear Asian centre of diversity. However, the Nearctic and Neotropical America together form a second centre of diversity, with one-third of known species of Goodyerinae. Previously, only a few American samples have been included in phylogenetic studies, and their putatively Asian origins and American divergence times were poorly known. To elucidate these topics, we inferred phylogenetic trees, performed molecular dating and reconstructed biogeographic history using nuclear ribosomal ITS and plastid matK sequences for 34 species of Goodyerinae from the New World and 76 previously published accessions of Cranichideae. Our well-supported phylogenetic topology suggests two independent dispersal events to the New World from the Indomalesian region during the Miocene. The first inferred dispersal of a Neotropical clade diverged c. 11 Mya from their most recent common ancestor (MRCA), comprising three highly supported subclades that do not match the limits of Aspidogyne, Kreodanthus and Microchilus as previously circumscribed. The second dispersal involved a largely Nearctic clade of Goodyera s.l. diverging c. 8.4 Mya from the MRCA and exhibiting a complex biogeographic history with subsequent dispersals between the Nearctic and Indomalesia. The occurrence of these species in gallery forests putatively prevented vicariance events imposed by the expansion of the Chacoan region as previously detected for epiphytic Orchidaceae. Eighty-nine nomenclatural combinations and three new names in Microchilus are proposed.
Pabstiella consists of c. 130 epiphytic species in the Neotropics. We present a phylogenetic analysis based on nrITS, matK and trnH-psbA sequences from 59 species of the genus and 40 Pleurothallidinae and two Laeliinae and one Bletiinae as an outgroup, using maximum likelihood, Bayesian inference and maximum parsimony. We also performed molecular dating, biogeographical analyses and ancestral morphological character reconstruction. Our results confirm the monophyly of Pabstiella with strong support. Ten clades are inferred and are herein proposed as sections. Pabstiella originated in the Andes and the Atlantic Rainforest in the Late Miocene (c. 7.93 Mya) in an epoch when these biomes were probably connected. A main vicariance event divided an early-diverging lineage that inhabited the Andes from an Atlantic Rainforest lineage that diversified in this region during the Pliocene and Pleistocene, mainly in the Serra do Mar in south-eastern Brazil. Our findings also suggest that the Atlantic Rainforest may have played an important role in the origin of subtribe Pleurothallidinae. The morphological character reconstruction showed high levels of homoplasy, with few recognized synapomorphies associated with stems and petals. Other characters related to the habit and stems were identified as important in the evolutionary history of the genus.
In order to evaluate the monophyly of the genus Orleanesia (Orchidaceae) and to assess its position within Laeliinae, a phylogenetic analysis was performed using molecular (nuclear ITS and plastid matK DNA sequences) and morphological data. A taxonomic revision of Orleanesia was also performed, with a description of the genus and its species using fresh living plants and 115 exsiccates from 31 herbaria. All phylogenetic analyses were highly congruent, and thus the sequence data from all three data sets were combined. The resulting phylogeny corroborated the monophyly of Orleanesia, with two strongly supported clades, and confirmed Caularthron as its sister group. Character analysis was not very informative due to a high degree of homoplasy. Two lectotypifications and three new synonyms were proposed for the genus, thereby reducing the number of accepted species to six. Although none of the species of Orleanesia are considered endangered, it is clear that some populations are threatened with deforestation and habitat reduction.
We present the first comparative plastome study of Pleurothallidinae with analyses of structural and molecular characteristics and identification of the ten most-variable regions to be incorporated in future phylogenetic studies. We sequenced complete plastomes of eight species in the subtribe and compared phylogenetic results of these to parallel analyses of their nuclear ribosomal DNA operon (26S, 18S, and 5.8S plus associated spacers) and partial mitochondrial genome sequences (29–38 genes and partial introns). These plastomes have the typical quadripartite structure for which gene content is similar to those of other orchids, with variation only in the composition of the ndh genes. The independent loss of ndh genes had an impact on which genes border the inverted repeats and thus the size of the small single-copy region, leading to variation in overall plastome length. Analyses of 68 coding sequences indicated the same pattern of codon usage as in other orchids, and 13 protein-coding genes under positive selection were detected. Also, we identified 62 polymorphic microsatellite loci and ten highly variable regions, for which we designed primers. Phylogenomic analyses showed that the top ten mutational hotspots represent well the phylogenetic relationships found with whole plastome sequences. However, strongly supported incongruence was observed among plastid, nuclear ribosomal DNA operon, and mitochondrial DNA trees, indicating possible occurrence of incomplete lineage sorting and/or introgressive hybridization. Despite the incongruence, the mtDNA tree retrieved some clades found in other analyses. These results, together with performance in recent studies, support a future role for mitochondrial markers in Pleurothallidinae phylogenetics.
Dryadella (Orchidaceae, Epidendreae) is a Neotropical genus predominantly distributed in the Andean region and the Atlantic rainforest (ARF). Three species occurring in the Brazilian ARF, Dryadella edwallii, D. wuerstlei, and D. zebrina, are challenge to tell apart due to the overlap of morphological characters that define them, so we considered these species as morphotypes. To evaluate the current taxonomic status and to identify suitable characters for the better delimitation of taxon within this group, we measured and analyzed 40 flower characters from 145 individuals of 23 populations distributed throughout the geographical range of this species complex, representing all the morphological diversity of these morphotypes. We performed a principal component analysis (PCA) to summarize all the morphological variations found and a permutational multivariate analysis of variance (PERMANOVA) to verify whether the groups formed by the PCA are statistically different. To assess the phenetic relationships among individuals, we generated an unweighted pair group method with arithmetic mean (UPGMA) dendrogram. As a result, it was possible to clearly differentiate D. wuerstlei from the two other species. The variables that contributed most to the differentiation of the species were the perimeter and area of the sepals (SD1, SD2, SL10); area and width of the apex, mid-portion, and base of the petals (PT19, PT21, PT22, and PT2); and the measurements of the base and widest portion of the lip blade (LB36, LB38). The second group was formed by all individuals of D. edwallii and D. zebrina which present highly overlapping characters with no clear separation between their populations based on PCA and UPGMA results. With this in view, we considered that D. edwallii and D. zebrina correspond to a single species, while D. wuerstlei should remain recognized as a distinct species. We present a taxonomic circumscription of D. wuerstlei and D. zebrina to clarify the taxonomic delimitation of these taxa, highlighting morphological diagnostic characters and their geographical distribution.
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