Maximum likelihood and Bayesian inference for common-cause of failure model

2019 ◽  
Vol 182 ◽  
pp. 56-62 ◽  
Author(s):  
H.D. Nguyen ◽  
E. Gouno
Keyword(s):  
Bayesian Inference ◽  
Maximum Likelihood ◽  
Failure Model ◽  
Common Cause ◽  
Cause Of Failure

Xylodon bambusinus and X. xinpingensis spp. nov. (Hymenochaetales) from southern China

Phytotaxa ◽  
2021 ◽  
Vol 511 (3) ◽  
Author(s):  
XIANG MA ◽  
CHANG-LIN ZHAO
Keyword(s):  
New Species ◽  
Bayesian Inference ◽  
Maximum Likelihood ◽  
Growth Habit ◽  
Southern China ◽  
Phylogenetic Analyses ◽  
Molecular Data ◽  
Two New Species ◽  
Thin Walled ◽  
Inference Methods

Two new species, Xylodon bambusinus and X. xinpingensis, are proposed based on morphological and molecular evidences. Both species share the annual growth habit, resupinate basidiomata and monomitic hyphal system with clamped, colorless generative hyphae, smooth, thin-walled basidiospores, but X. bambusinus is characterized by the smooth to tuberculate hymenial surface, presence of capitate and fusiform cystidia, broad ellipsoid basidiospores, while X. xinpingensis by the reticulate hymenophore with cream hymenial surface, and subglobose basidiospores (4.5–6 × 3.5–5 µm). Sequences of ITS and LSU nrRNA gene regions of the studied samples were generated, and phylogenetic analyses were performed with maximum likelihood, maximum parsimony and Bayesian inference methods. The phylogenetic analyses based on molecular data of ITS and ITS+nLSU sequences showed that X. bambusinus was sister to X. subclavatus, while X. xinpingensis grouped with X. astrocystidiatus and X. paradoxus. The nLSU dataset revealed that X. bambusinus grouped with X. asperus and X. brevisetus with lower supports, and that X. xinpingensis grouped with X. astrocystidiatus and X. paradoxus and then with X. rimosissimus without supports. Both morphological and molecular evidences confirmed the placement of two new species in Xylodon. Description and figures from the new species and a key to the known species of Xylodon from China are presented.

Towards a monophyletic classification of Lejeuneaceae III: the systematic position of Leiolejeunea

Phytotaxa ◽  
2014 ◽  
Vol 170 (3) ◽  
pp. 187 ◽  
Author(s):  
ALFONS SCHÄFER-VERWIMP ◽  
KATHRIN FELDBERG ◽  
SHANSHAN DONG ◽  
HUUB VAN MELICK ◽  
DENILSON F. PERALTA ◽  
...  
Keyword(s):  
Bayesian Inference ◽  
Maximum Likelihood ◽  
Dna Sequences ◽  
Its Region ◽  
Systematic Position ◽  
Leaf Cell ◽  
Oil Bodies ◽  
Sister Relationship ◽  
First Time

The derived liverwort Leiolejeunea grandiflora was recollected at the type locality in Jamaica after more than 100 years. The characteristics of its oil bodies were described for the first time based on the new collections. Each leaf cell possesses 2-4(-6) rather small, subhomogeneous to very finely segmented, subglobose to ellipsoidal, colorless oil bodies. The plants were either dioicous or autoicous. DNA sequences of two chloroplast regions (trnL-trnF, rbcL) and the nuclear ribosomal ITS region were obtained for two accessions of Leiolejeunea to enable the inference of the phylogenetic relationships of these plants. Based on Bayesian inference of phylogeny as well as maximum parsimony and maximum likelihood analyses of a dataset including 87 representatives of Lejeuneaceae, Leiolejeunea was found as the putative sister to either Echinolejeuneinae or Cheilolejeuneinae. Thus, we propose the new monogeneric subtribe Leiolejeuneinae with relationships to Cheilolejeuneinae and Echinolejeuneinae. The analyses included also one accession of the generitype of Cheilolejeunea, C. decidua [= Cheilolejeunea adnata]. This species was found in a well supported sister relationship with Cystolejeunea. To avoid nomenclatural confusion, we propose a wide genus concept for Cheilolejeunea including Aureolejeunea, Cyrtolejeunea, Cystolejeunea, Evansiolejeunea, Leucolejeunea, and Omphalanthus.

scholarly journals Feasibility Study of Developing Alternative Common-Cause Failure Model for Event Assessment

2021 ◽  
Author(s):  
Zhegang Ma ◽  
James Knudsen ◽  
John Schroeder ◽  
Curtis Smith
Keyword(s):  
Feasibility Study ◽  
Failure Model ◽  
Common Cause ◽  
Common Cause Failure

Additions to the microfungi in Taiwan: introducing Pseudorobillarda camelliae-sinensis sp. nov., (Pseudorobillardaceae) and new host records of pleosporalean taxa in mountainous habitats

Phytotaxa ◽  
2021 ◽  
Vol 516 (2) ◽  
Author(s):  
ACHALA R. RATHNAYAKA ◽  
K.W. THILINI CHETHANA ◽  
DANUSHKA S. TENNAKOON ◽  
SAISAMORN LUMYONG ◽  
KEVIN D. HYDE
Keyword(s):  
Bayesian Inference ◽  
Maximum Likelihood ◽  
Sequence Data ◽  
Similar Species ◽  
New Host ◽  
Mountain Ranges ◽  
Mountain Habitats ◽  
Phylogenetic Affinities ◽  
New Host Records

A novel taxon, Pseudorobillarda camelliae-sinensis (Pseudorobillardaceae) and new host records of pleosporalean taxa viz. Neopyrenochaeta triseptatispora (Neopyrenochaetaceae), Ramusculicola thailandica (Teichosporaceae) and Vaginatispora palmae (Lophiostomataceae) resulted from our investigation of plant-associated microfungi in Alishan and Fenghuang Mountain ranges in Taiwan. These taxa were isolated from dicotyledonous hosts of Bignoniaceae, Caprifoliaceae, Meliaceae and Moraceae. Maximum likelihood and Bayesian inference analyses were performed using combined SSU, LSU, ITS, tef1-α and rpb2 sequence data to clarify the phylogenetic affinities of taxa. The newly described taxa of the current study are accompanied by comprehensive descriptions, micrographs and comparisons with similar species. In addition, the importance of exploiting fungi from mountain habitats in Taiwan is discussed.

Systematic relationships of the Taeniapterini (Diptera: Micropezidae, Taeniapterinae)

Zootaxa ◽  
2021 ◽  
Vol 5004 (2) ◽  
pp. 370-384
Author(s):  
GUSTAVO BORGES FERRO ◽  
JEFFREY H. SKEVINGTON ◽  
STEPHEN A. MARSHALL ◽  
SCOTT KELSO
Keyword(s):  
Bayesian Inference ◽  
Maximum Likelihood ◽  
Cytochrome C ◽  
16S Rrna ◽  
Molecular Phylogeny ◽  
Cytochrome C Oxidase ◽  
28S Rrna ◽  
Mitochondrial Cytochrome ◽  
Oxidase Subunit ◽  
Systematic Relationships

A molecular phylogeny for the Taeniapterinae is presented based on mitochondrial (cytochrome c oxidase subunit I, COI), ribosomal (16S rRNA and 28S rRNA) and nuclear (EF-1α and CAD) genes of 48 specimens including 40 species. Maximum likelihood and Bayesian inference were used to analyze the total concatenated dataset of 8769 bp. The results confirm that tribal classifications in Taeniapterinae are artificial and support the separation of Paragrallomyia Hendel and Taeniaptera sensu Ferro & Marshall (2020).

The phylogenetic relationships of Paramesotriton (Caudata: Salamandridae) based on partial mitochondrial DNA gene sequences

Zootaxa ◽  
2012 ◽  
Vol 3150 (1) ◽  
pp. 59
Author(s):  
XIAOMING GU ◽  
HUI WANG ◽  
RONGRONG CHEN ◽  
YINGZHOU TIAN ◽  
SONG LI
Keyword(s):  
Mitochondrial Dna ◽  
Bayesian Inference ◽  
Maximum Likelihood ◽  
16S Rdna ◽  
Phylogenetic Relationships ◽  
Maximum Parsimony ◽  
Mitochondrial Gene ◽  
Sister Group ◽  
Species Group ◽  
Close Phylogenetic Relationship

We examined phylogenetic relationships among newst of the genus Paramesotriton using partial mitochondrial gene se-quences, including the ND2-tRNATyr region (1415 bp) and the 12S rDNA-tRNAVal -16S rDNA region (1774 bp), from 42individuals of 10 recognized Paramesotriton species and outgroups by Bayesian inference (BI), Maximum likelihood(ML) and Maximum Parsimony (MP) methods. We found that, (1) Laotriton laoensis is the sister group of Paramesotri-ton, (2) the genus Paramesotriton is monophyletic, composed of either the P. caudopunctatus species group and the P.chinensis species group, or the subgenera Allomesotriton and Paramesotriton (3) P. longliensis and P. zhijinensis shouldbe placed in the P. caudopunctatus species group or subgenus Allomesotriton; (4) P. fuzhongensis is not a junior synonym of P. chinensis, and there is a close phylogenetic relationship between P. fuzhongensis and P. guangxiensis.

A new species of Tubaria (Tubariaceae, Agaricales) from northeast China

Phytotaxa ◽  
2019 ◽  
Vol 409 (2) ◽  
pp. 93-100
Author(s):  
HUI ZENG ◽  
LIANGLIANG QI ◽  
YUPENG GE ◽  
YU LI
Keyword(s):  
New Species ◽  
Bayesian Inference ◽  
Maximum Likelihood ◽  
Related Species ◽  
Internal Transcribed Spacer ◽  
Northeast China ◽  
Phylogenetic Analyses ◽  
Taxonomic Description ◽  
Internal Transcribed Spacer Sequences ◽  
A New Species

Tubaria squamata is described as new from Jiaohe county, Jilin province, China. This species is distinctive morphologically because of the small (slightly) hairy or scaly pileus, subelliptic to elliptic non-amyloid basidiospores, subclavate to cylindrical or lageniform cheilocystidia, and a pileipellis as a cutis. Phylogenetic analyses based on internal transcribed spacer sequences with Bayesian Inference analysis (BA) and Maximum Likelihood (ML) showed that T. squamata is different from related species. Illustrations and a complete taxonomic description are also provided, as well as a key to the Tubaria species known from China.

scholarly journals Analysis of Cause of Endodontic Failure of C-Shaped Root Canals

Scanning ◽  
2018 ◽  
Vol 2018 ◽  
pp. 1-7 ◽  
Author(s):  
Yemi Kim ◽  
Donghee Lee ◽  
Da-Vin Kim ◽  
Sin-Young Kim
Keyword(s):  
Root Canal ◽  
Root Surface ◽  
Cone Beam ◽  
Common Cause ◽  
Root Canals ◽  
Cause Of Failure ◽  
End Resection ◽  
Scanning Electron ◽  
Periapical Radiography

The purpose of this study was to analyze various characteristics and classification of C-shaped root canals and evaluate the causes of endodontic failure of C-shaped root canals by examining the resected root surface with an endodontic microscope and a scanning electron microscope (SEM). Forty-two teeth with C-shaped root canals were included in this study and had undergone intentional replantation surgery. Before surgery, periapical radiography and cone-beam computed tomography were taken. The root canal configuration was analyzed and classified according to Melton’s classification at coronal and apical level. After injection of 1 : 100,000 epinephrine with 2% lidocaine, the tooth was carefully extracted. After the root-end resection, the resected root surface was examined using an operating microscope and SEM. Mandibular second molars were most frequently involved teeth (90.4%). The most frequently observed root canal configurations were C1 at the coronal level (45.2%) and C3 at the apical 3 mm level (45.2%). The most common cause of failure for a C-shaped root canal treatment was a leaky canal (45.2%), followed by an isthmus (23.8%), missing canal, overfilling, and iatrogenic problems. In conclusion, C-shaped root canals were most frequently found in mandibular second molars. The most common cause of failure was a leaky canal and isthmus.

Gloeodontia yunnanensis sp. nov. (Russulales, Basidiomycota) from China, evidenced by morphological characters and phylogenetic analyses

Phytotaxa ◽  
2020 ◽  
Vol 432 (2) ◽  
pp. 111-118
Author(s):  
LU CHEN ◽  
ZHENG-JUN SHI ◽  
CHUN-HUA WU ◽  
CHANG-LIN ZHAO
Keyword(s):  
Bayesian Inference ◽  
Maximum Likelihood ◽  
Maximum Parsimony ◽  
Phylogenetic Analyses ◽  
Strong Support ◽  
Morphological Characters ◽  
Fungal Species ◽  
Monophyletic Lineage ◽  
Thin Walled ◽  
Inference Methods

A new wood-inhabiting fungal species, Gloeodontia yunnanensis, is proposed based on a combination of morphological features and DNA data. The species is characterized by an annual, resupinate basidiomata with smooth hymenial surface, a monomitic hyphal system with thin-walled, clamped generative hyphae and obclavate cystidia and subglobose to globose, hyaline, thick-walled, asperulate, strongly amyloid, acyanophilous basidiospores measuring 3.3–4.3 × 2.5–3.5 µm. Sequences of ITS and 28S gene regions of the studied samples were generated and phylogenetic analyses were performed with Maximum Likelihood, Maximum Parsimony and Bayesian Inference methods. The analyses based on ITS+28S sequences showed that G. yunnanensis nested in the Gloeodontia clade and formed a monophyletic lineage with strong support (100% BS, 100% BP, 1.00 BPP).

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