Search

One nucleotide substitution in codon 81 of HLA-B*40:01:01 results in a novel allele, HLA-B*40:400., (© 2024 John Wiley & Sons A/S. Published by John Wiley & Sons Ltd.)

A nucleotide mutation in codon 171 of HLA-A*11:01:01:01 results in a novel allele HLA-A*11:127N., (© 2024 John Wiley & Sons A/S. Published by John Wiley & Sons Ltd.)

One nucleotide substitution in codon 130 of HLA-DQB1*03:03:02:01 results in a novel allele HLA-DQB1*03:96., (© 2024 John Wiley & Sons A/S. Published by John Wiley & Sons Ltd.)

Two nucleotide substitutions in codon 152 of HLA-C*08:01:01:01 result in a novel allele HLA-C*08:66., (© 2024 John Wiley & Sons A/S. Published by John Wiley & Sons Ltd.)

A nucleotide deletion in the residue 371 of HLA-A*11:01:01:01 results in a novel allele HLA-A*11:466N., (© 2024 John Wiley & Sons A/S. Published by John Wiley & Sons Ltd.)

Nucleotide substitution in codon 238 of HLA-C*12:02:02:01 results in a novel allele, HLA-C*12:02:53., (© 2024 John Wiley & Sons A/S. Published by John Wiley & Sons Ltd.)

One nucleotide substitution in codon 264 of HLA-C*07:02:01:01 results in a novel allele, HLA-C*07:359., (© 2024 John Wiley & Sons A/S. Published by John Wiley & Sons Ltd.)

One nucleotide substitution in codon 214 of HLA-C*03:04:01:01 results in a novel allele, HLA-C*03:649., (© 2024 John Wiley & Sons A/S. Published by John Wiley & Sons Ltd.)

One nucleotide substitution in codon 131 of HLA-C*03:04:01:01 results in a novel allele, HLA-C*03:04:89., (© 2023 John Wiley & Sons A/S. Published by John Wiley & Sons Ltd.)

One nucleotide substitution in codon 217 of HLA-DRB1*09:01:02:01 results in a novel allele HLA-DRB1*09:01:15., (© 2023 John Wiley & Sons A/S. Published by John Wiley & Sons Ltd.)

Two nucleotide substitutions in codon 24 of HLA-A*02:01:01:01 result in a novel allele HLA-A*02:570:01., (© 2023 John Wiley & Sons A/S. Published by John Wiley & Sons Ltd.)

One nucleotide substitution in codon 140 of HLA-DRB1*04:05:01:01 results in a novel allele, HLA-DRB1*04:358., (© 2023 John Wiley & Sons A/S. Published by John Wiley & Sons Ltd.)

One nucleotide substitution in codon 227 of HLA-C*03:04:01:01 results in a novel allele, HLA-C*03:04:20., (© 2022 John Wiley & Sons A/S. Published by John Wiley & Sons Ltd.)

One nucleotide substitution in codon 317 of HLA-B*57:01:01:01 results in the novel allele, HLA-B*57:164., (© 2022 John Wiley & Sons A/S. Published by John Wiley & Sons Ltd.)

A nucleotide mutation in exon 1 of HLA-A*02:06:01:01 results in the novel allele, HLA-A*02:759., (© 2022 John Wiley & Sons A/S. Published by John Wiley & Sons Ltd.)

One nucleotide substitution at codon 310 of HLA-A*02:07:01:01 results in the novel allele, HLA*02*07:19., (© 2022 John Wiley & Sons A/S. Published by John Wiley & Sons Ltd.)

One nucleotide substitution at codon 217 of HLA-DRB1*16:02:01:01 results in a novel allele, HLA-DRB1*16:02:11., (© 2022 John Wiley & Sons A/S. Published by John Wiley & Sons Ltd.)

One nucleotide substitution in codon 51 of HLA-A*24:02:01:01 results in the novel allele, HLA-A*24:244., (© 2022 John Wiley & Sons A/S. Published by John Wiley & Sons Ltd.)

Two nucleotide mutations in exon 1 of HLA-B*40:01:01 result in the novel allele HLA-B*40:416., (© 2022 John Wiley & Sons A/S. Published by John Wiley & Sons Ltd.)

One nucleotide substitution in codon 141 of HLA-B*52:01:01:01 results in a novel allele HLA-B*52:109., (© 2022 John Wiley & Sons A/S. Published by John Wiley & Sons Ltd.)

One nucleotide substitution in codon 182 of HLA-C*08:03:01:01 results in a novel allele HLA-C*08:03:05., (© 2022 John Wiley & Sons A/S. Published by John Wiley & Sons Ltd.)

One nucleotide substitution in codon 8 of HLA-DRB1*11:01:01:01 results in a novel allele HLA-DRB1*11:01:47., (© 2022 John Wiley & Sons A/S. Published by John Wiley & Sons Ltd.)

A nucleotide mutation in exon 1 of HLA-B*13:01:01:01 results in the novel allele HLA-B*13:173., (© 2022 John Wiley & Sons A/S. Published by John Wiley & Sons Ltd.)

Nucleotide substitutions in exon 2 of DRB1*08:34 result in the novel DRB1*08:113 allele., (© 2022 John Wiley & Sons A/S. Published by John Wiley & Sons Ltd.)

One nucleotide substitution in codon 107 of HLA-DRB1*07:01:01:01 results in a novel allele HLA-DRB1*07:136., (© 2022 John Wiley & Sons A/S. Published by John Wiley & Sons Ltd.)

One nucleotide substitution in codon 182 of HLA-C*08:22:01:01 results in a novel allele HLA-C*08:22:02., (© 2022 John Wiley & Sons A/S. Published by John Wiley & Sons Ltd.)

Nucleotide substitutions in codons 11 and 12 of HLA-A*26:01:01:01 result in a novel allele, HLA-A*26:35., (© 2022 John Wiley & Sons A/S. Published by John Wiley & Sons Ltd.)

One nucleotide substitution in codon 152 of HLA-A*02:06:01:01 results in a novel allele HLA-A*02:99:01., (© 2022 John Wiley & Sons A/S. Published by John Wiley & Sons Ltd.)

One nucleotide substitution in codon 82 of HLA-A*24:02:01:01 results in a novel allele HLA-A*24:255., (© 2022 John Wiley & Sons A/S . Published by John Wiley & Sons Ltd.)

One nucleotide deletion at position 61 of HLA-A*11:01:01:01 results in the novel allele HLA-A*11:417N., (© 2022 John Wiley & Sons A/S . Published by John Wiley & Sons Ltd.)

Nucleotide mutations in exons 1 and 4 of HLA-B*40:01:01 result in the novel allele HLA-B*40:483N., (© 2022 John Wiley & Sons A/S. Published by John Wiley & Sons Ltd.)

One nucleotide substitution in codon 128 of HLA-A*32:01:01:01 results in a novel allele, HLA-A*32:34., (© 2022 John Wiley & Sons A/S. Published by John Wiley & Sons Ltd.)

One nucleotide substitution at codon 169 of HLA-DRB1*14:05:01:01 results in a novel allele, HLA-DRB1*14:05:05., (© 2022 John Wiley & Sons A/S. Published by John Wiley & Sons Ltd.)

One nucleotide substitution in exon 3 of HLA-B*55:02:01:01 results in a novel allele, HLA-B*55:123., (© 2022 John Wiley & Sons A/S. Published by John Wiley & Sons Ltd.)

Four nucleotide substitutions in exon 3 of HLA-B*39:01:01:01 result in a novel allele, HLA-B*39:36., (© 2021 John Wiley & Sons A/S. Published by John Wiley & Sons Ltd.)

Four nucleotide substitutions in exon 3 of HLA-B*15:01:01:01 result in a novel allele, HLA-B*15:360., (© 2021 John Wiley & Sons A/S. Published by John Wiley & Sons Ltd.)

One nucleotide substitution in codon 56 of HLA-A*02:56:01 results in a novel allele, HLA-A*02:56:02., (© 2021 John Wiley & Sons A/S. Published by John Wiley & Sons Ltd.)

One nucleotide substitution in codon 47 of HLA-A*11:01:01:01 results in a novel allele, HLA-A*11:85., (© 2021 John Wiley & Sons A/S. Published by John Wiley & Sons Ltd.)

One nucleotide substitution in codon 77 of HLA-B*51:01:01:01 results in a novel allele, HLA-B*51:185., (© 2021 John Wiley & Sons A/S. Published by John Wiley & Sons Ltd.)

One nucleotide substitution in codon 182 of HLA-A*11:01:01:01 results in a novel allele, HLA-A*11:32:01., (© 2021 John Wiley & Sons A/S. Published by John Wiley & Sons Ltd.)

One nucleotide substitution in codon 253 of HLA-A*02:01:01:01 results in a novel allele, HLA-A*02:294., (© 2021 John Wiley & Sons A/S. Published by John Wiley & Sons Ltd.)

Wulingshen, massive Xylaria sclerotia, was originally reported from Chengdu Plain in western Sichuan of China for medicinal application. Xylaria nigripes is commonly connected to these massive sclerotia produced within abandoned underground macrotermitine termite nests. We sequenced 54 Wulingshen samples procured from traditional Chinese medicine markets in Chengdu Plain and connected them to six different Xylaria species: X. nigripes, X. subescharoidea , two species newly described herein- X. neonigripes and X. rogersionigripes , and two species that are known only as sclerotia thus far. Only teleomorphs of X. subescharoidea and X. rogersionigripes have been collected in Chengdu Plain thus far. In Taiwan, teleomorphs of four of the six species, except for the two only known in sclerotial form, have been collected, and their cultures were obtained; we thus designate the holotypes of X. neonigripes and X. rogersionigripes on the basis of Taiwan specimens. During the collecting activities carried out in Chengdu Plain, a Xylaria species, which is newly described as X. mianyangensis herein, was also collected from termite nests but lacks a known connection to Wulingshen.

One nucleotide substitution in codon 178 of HLA-A*24:02:01:01 results in a novel allele, HLA-A*24:141., (© 2021 John Wiley & Sons A/S. Published by John Wiley & Sons Ltd.)

One nucleotide substitution in codon 67 of HLA-DRB1*04:05:01:01 results in a novel allele, HLA-DRB1*04:80., (© 2021 John Wiley & Sons A/S. Published by John Wiley & Sons Ltd.)

One nucleotide substitution in codon 105 of HLA-A*11:01:01:01 results in a novel allele, HLA-A*11:01:06., (© 2021 John Wiley & Sons A/S. Published by John Wiley & Sons Ltd.)

DNA recombination between DRB1*14:25:01 and DRB1*14:54:01:01 produced the novel DRB1*14:22 allele., (© 2021 John Wiley & Sons A/S. Published by John Wiley & Sons Ltd.)

One nucleotide substitution in codon 146 of HLA-B*35:01:01:01 results in a novel allele, HLA-B*35:518., (© 2021 John Wiley & Sons A/S. Published by John Wiley & Sons Ltd.)

Scrub typhus is a febrile disease caused by Orientia tsutsugamushi, transmitted by larval stage Trombiculid mites (chiggers), whose primary hosts are small mammals. The phylogenomics of O. tsutsugamushi in chiggers, small mammals and humans remains poorly understood. To combat the limitations imposed by the low relative quantities of pathogen DNA in typical O. tsutsugamushi clinical and ecological samples, along with the technical, safety and cost limitations of cell culture, a novel probe-based target enrichment sequencing protocol was developed. The method was designed to capture variation among conserved genes and facilitate phylogenomic analysis at the scale of population samples. A whole-genome amplification step was incorporated to enhance the efficiency of sequencing by reducing duplication rates. This resulted in on-target capture rates of up to 93% for a diverse set of human, chigger, and rodent samples, with the greatest success rate in samples with real-time PCR C t values below 35. Analysis of the best-performing samples revealed phylogeographic clustering at local, provincial and international scales. Applying the methodology to a comprehensive set of samples could yield a more complete understanding of the ecology, genomic evolution and population structure of O. tsutsugamushi and other similarly challenging organisms, with potential benefits in the development of diagnostic tests and vaccines., (Copyright © 2021 The Authors. Published by Elsevier B.V. All rights reserved.)

One nucleotide substitution in codon -4 of HLA-A*11:01:01:01 results in a novel allele, HLA-A*11:01:111., (© 2021 John Wiley & Sons A/S. Published by John Wiley & Sons Ltd.)

One nucleotide substitution in codon 156 of HLA-A*02:07:01:01 results in a novel allele, HLA-A*02:191., (© 2021 John Wiley & Sons A/S. Published by John Wiley & Sons Ltd.)