Journal of Asia-Pacific Biodiversity最新文献

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Complete chloroplast genome of Physochlaina infundibularis Kuang (Hyoscyameae: Solanaceae): Comparative and phylogenetic analysis 龙葵亚科龙葵全叶绿体基因组的比较与系统发育分析

IF 0.7 Q4 BIODIVERSITY CONSERVATION

Journal of Asia-Pacific Biodiversity

Pub Date : 2025-02-13 DOI: 10.1016/j.japb.2025.01.004

Shanshan Kong , Jiaxin Yang , Guangwan Hu

Physochlaina G. Don, a genus within Hyoscyameae, Solanaceae, holds significant medicinal value. It comprises approximately 10 species, primarily distributed in China, with chloroplast genomes reported for two species. In this study, the complete chloroplast genome of Physochlaina infundibularis was sequenced using the Illumina platform, revealing a size of 156,340 base pairs and containing 113 genes: 79 protein-coding genes, 30 transfer RNA-coding genes, and 4 ribosomal RNA-coding genes. The genome exhibited a guanine-cytosine (GC) content of 37.7%, consistent with other species in the genus, influencing codon preference toward A/U due to its lower GC content. Comparative analyses among P. infundibularis, Physochlaina orientalis, and Physochlaina physaloides highlighted high conservation within chloroplast coding regions relative to noncoding regions. Five genes showed notable nucleotide polymorphisms in protein-coding regions, suggesting potential as DNA barcodes. Phylogenetic investigations within Hyoscyameae and its sister groups resolved some taxonomic controversies. The newly sequenced chloroplast genome of P. infundibularis enriches our understanding of the genus and serves as a foundational resource for future phylogenetic research.

龙葵属（Physochlaina G. Don）是龙葵科龙葵科的一个属，具有重要的药用价值。共有约10种，主要分布于中国，其中2种的叶绿体基因组已被报道。本研究利用Illumina平台对黄颡鱼（Physochlaina infunddibularis）叶绿体全基因组进行测序，发现基因组大小为156,340碱基对，包含113个基因，其中蛋白质编码基因79个，转移rna编码基因30个，核糖体rna编码基因4个。该基因组的鸟嘌呤-胞嘧啶（guine -cytosine， GC）含量为37.7%，与属内其他物种一致，由于其GC含量较低，影响了密码子对a /U的偏好。对比分析表明，与非编码区相比，黄颡鱼、东方鲷和绒泡鲷在叶绿体编码区具有较高的保守性。其中5个基因在蛋白质编码区表现出显著的核苷酸多态性，具有作为DNA条形码的潜力。对其姊妹类群的系统发育研究解决了一些分类学上的争议。新测序的infunddibularis叶绿体基因组丰富了我们对该属的认识，并为今后的系统发育研究提供了基础资源。

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引用次数: 0

Five species of macrofungi (Basidiomycota) new to Korea 标题韩国五种大型真菌（担子菌科）新发现

IF 0.6 Q4 BIODIVERSITY CONSERVATION

Journal of Asia-Pacific Biodiversity

Pub Date : 2025-02-12 DOI: 10.1016/j.japb.2025.01.003

Sung-Eun Cho , Yong Ho Kim , Dong-Hyeon Lee , Jinheung Lee , Keum Chul Shin , Jong Won Jo , Hae Jin Cho , Nam Kyu Kim

South Korea has more than 3300 islands, each with a unique ecosystem and biodiversity distinct from the mainland. These islands are rich in biological resources of high conservation value, with new and previously undocumented species continually being discovered. However, research on fungal diversity and distribution in these island areas remains limited. Therefore, a mycological investigation was conducted in 2023 in three island areas in Southwestern Korea. Several samples of wild mushrooms were collected and subjected to DNA extraction, polymerase chain reaction, and phylogenetic analysis, resulting in the identification of five specimens from different species. Based on phylogenetic analysis and morphological examination, five species—Agaricus deardorffensis, Agaricus melanocarpus, Boletellus aurocontextus, and Strobilomyces seminudus, Xeromphalina tenuipes—were reported for the first time in Korea. This study presents the morphological descriptions, color photographs, and phylogenetic analyses of these species.

韩国有3300多个岛屿，每个岛屿都有与大陆不同的独特生态系统和生物多样性。这些岛屿拥有丰富的生物资源，具有很高的保护价值，不断发现新的和以前未记载的物种。然而，对这些岛屿地区真菌多样性和分布的研究仍然有限。因此，于2023年在韩国西南部的三个岛屿地区进行了真菌学调查。采集野生蘑菇标本，进行DNA提取、聚合酶链反应和系统发育分析，鉴定出5个不同种类的野生蘑菇标本。通过系统发育分析和形态学检查，在国内首次报道了5个种：deardorffensis、Agaricus melanocarpus、Boletellus aurocontextus和Strobilomyces semudus、Xeromphalina tenuipes。本文介绍了这些物种的形态描述、彩色照片和系统发育分析。

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引用次数: 0

First record of the genus Alluaudomyia (Diptera: Ceratopogonidae) with five species in the Republic of Korea 文章标题韩国首次记录蠓属5种（双翅目：蠓科）

IF 0.7 Q4 BIODIVERSITY CONSERVATION

Journal of Asia-Pacific Biodiversity

Pub Date : 2025-02-07 DOI: 10.1016/j.japb.2025.01.007

Dong-Yeol Lee , Jiseung Jeon , Seungbak An , Seonmin Kim , Ilyeong Jeong , Jihun Ryu , In-Soon Roh , Kwang Shik Choi

The genus Alluaudomyia Kieffer, 1913 (Diptera: Ceratopogonidae) represents a diverse group of predaceous midges for their small size, pale coloration, and characteristic dark spot patterns on their wings, with a global distribution and 206 species documented to date. This study presents the first record of five Alluaudomyia species in the Korean Peninsula with a taxonomic key for these species and provides DNA barcoding data with COI region. Specimens were collected over a two-year period from the Republic of Korea using black light traps. The newly identified species were A. lucania Lee and Yu, 1997, A. quinquepicina Yu and Zhang, 2005, A. signosoma Yu and Zhang, 2005, A. tiberghieni Neveu, 1978, and A. tripartita Okada, 1942. These findings provide a foundation for further taxonomic studies and biodiversity assessments of Ceratopogonidae in Korea.

Alluaudomyia Kieffer属，1913（双翅目：蠓科）代表了一种不同的食肉蠓，它们体型小，颜色浅，翅膀上有典型的暗斑图案，分布在全球，迄今为止记录了206种。本研究首次在朝鲜半岛记录了5个Alluaudomyia种，并对其进行了分类检索，并提供了COI区DNA条形码数据。在两年的时间里，使用黑光诱捕器在大韩民国收集了标本。新鉴定种为A. lucania Lee and Yu（1997）、A. quinquepicina Yu and Zhang（2005）、A. signoma Yu and Zhang（2005）、A. tiberghieni Neveu（1978）和A. tripartita Okada（1942）。这些发现为进一步开展韩国蠓科的分类研究和生物多样性评价奠定了基础。

引用次数: 0

Taxonomic review of the genus Neolethaeus Distant (Heteroptera: Lygaeoidea: Rhyparochromidae) from Korea 文章标题韩国远新蛾属的分类学研究（异翅目：偃麦草总科：偃麦草科）

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Journal of Asia-Pacific Biodiversity

Pub Date : 2025-02-06 DOI: 10.1016/j.japb.2025.01.005

Geunho Jang , Sunghoon Jung

In this study, we reviewed the genus Neolethaeus (Lygaeoidea: Rhyparochromidae) from Korea with a new record, Neolethaeus lewisi (Distant, 1883). We provide descriptions, diagnoses, and photographs of adult specimens and genitalia of the Korean species with a key to the species.

本文对韩国新记录的Neolethaeus lewisi（远系，1883）属（lygaeo总科：Rhyparochromidae）进行了综述。我们提供描述，诊断，和照片的成虫标本和生殖器官与一个关键的韩国物种。

引用次数: 0

Genetic diversity and DNA barcoding of Coccinella septempunctata (Coleoptera: Coccinellidae) from central China 中国中部七星瓢虫（鞘翅目：瓢虫科）遗传多样性及DNA条形码分析

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Journal of Asia-Pacific Biodiversity

Pub Date : 2025-02-05 DOI: 10.1016/j.japb.2025.01.006

Hong-Ling Liu , Zhi-Teng Chen , Xing-Long Wu , Peng Cai , De-Qiang Pu

The seven-spot ladybird Coccinella septempunctata Linnaeus, 1758 is an important biological control agent. Understanding its genetic diversity is vital for biodiversity conservation and effective pest management. We analyzed the DNA barcoding (mitochondrial cox1 gene) sequences from 71 individuals across five provinces in central China, collected between 2020 and 2023, and identified 19 distinct haplotypes, highlighting significant genetic diversity. The highest diversity was observed in Gansu province, while a series of specimens from Sichuan province displayed the lowest diversity. Phylogenetic analysis and haplotype networks did not reveal strong geographic clustering, suggesting frequent gene flow among populations. Shared haplotypes across regions further support this conclusion. These results provide new DNA barcoding resources for the molecular identification of C. septempunctata and highlight the necessity of preserving genetically diverse populations to maintain biodiversity.

七星瓢虫（Coccinella七星瓢虫，1758）是一种重要的生物防治剂。了解其遗传多样性对生物多样性保护和有效的病虫害管理至关重要。我们分析了2020年至2023年间收集的中国中部5个省份71个个体的DNA条形码（线粒体cox1基因）序列，并鉴定出19种不同的单倍型，突出了显著的遗传多样性。多样性最高的是甘肃省，最低的是四川省的一系列标本。系统发育分析和单倍型网络没有显示出强烈的地理聚类，这表明基因在种群之间频繁流动。跨区域共享的单倍型进一步支持了这一结论。这些结果为七星瓢虫的分子鉴定提供了新的DNA条形码资源，并强调了保护七星瓢虫遗传多样性以维持生物多样性的必要性。

引用次数: 0

Taxonomic review of the genus Octotemnus Mellié (Coleoptera: Tenebrionoidea: Ciidae) from Korea, with four unrecorded species associated with host fungi 韩国八爪蜂属（鞘翅目：拟步甲总科：姬蜂科）的分类学研究及与寄主真菌相关的4个未记录种

IF 0.6 Q4 BIODIVERSITY CONSERVATION

Journal of Asia-Pacific Biodiversity

Pub Date : 2025-01-27 DOI: 10.1016/j.japb.2024.12.006

Boo-Hee Jung , Jinbae Seung

The genus Octotemnus Mellié (Coleoptera: Tenebrionoidea: Ciidae) is taxonomically reviewed from Korea. We present six species of Korean Octotemnus, including four species new to Korea: Octotemnus assimilis Kobayashi & Sota, 2019, Octotemnus aculeatus Kawanabe, 2002, Octotemnus crassus Kobayashi & Sota, 2019, and Octotemnus robustus Kawanabe, 2002. Diagnoses for the four newly recorded species, a key to Korean Octotemnus, photographs for diagnostic characters of adult, line drawings of the male genitalia, and ecological information on their host fungi are provided.

对韩国八爪蛾属（鞘翅目：拟步甲总科：蠓科）进行了分类综述。我们介绍了6种韩国章鱼，其中包括4种韩国新种：章鱼同化小林；Sota, 2019，河边章鱼，2002，小林八爪章鱼；Sota, 2019，和Octotemnus robustus Kawanabe， 2002。文中还提供了4个新记录物种的诊断资料、韩国八爪鱼的钥匙、成虫诊断特征的照片、雄性生殖器的线条图以及它们的寄主真菌的生态信息。

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The complete chloroplast genome sequence of Begonia jingxiensis (Begoniaceae): Characterization and phylogeny 靖西海棠（海棠科）叶绿体全基因组序列：特征与系统发育

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Journal of Asia-Pacific Biodiversity

Pub Date : 2025-01-24 DOI: 10.1016/j.japb.2025.01.001

Qifeng Lu, Wenhua Luo

Begonia jingxiensis D. Fang & Y. G. Wei is one of Begonia species which are distributed in limestone karsts of Guangxi, China, and have important ecological and horticultural value. Here, we sequenced, assembled, and annotated the complete chloroplast genome of B. jingxiensis via Illumina sequencing technology. The chloroplast genome of B. jingxiensis was 169,711 bp in size, displayed a typical circular quadripartite structure with a large single-copy region (76,471 bp) and a small single-copy region (18,154 bp), and was separated by two inverted repeat regions (IRa/IRb; 37,543 bp). The genome encoded 140 genes, including 90 protein-coding genes, 42 transfer RNA (tRNA) genes, and eight ribosomal RNA (rRNA) genes. Phylogenetic analysis based on the complete chloroplast genome from 22 species supported that B. jingxiensis was clustered with other sect. Coelocentrum species and was a sister to Begonia umbraculifolia. This study will provide valuable genetic information for further species identification, popular genetic, diversity studies, and phylogenetic studies in the genus of Begonia.

靖西海棠；魏玉刚是分布在广西石灰岩岩溶区的海棠属植物之一，具有重要的生态和园艺价值。本研究利用Illumina测序技术对京西白杨叶绿体全基因组进行了测序、组装和注释。京西白刺叶绿体基因组大小为169,711 bp，呈典型的圆形四分体结构，单拷贝区大（76,471 bp），单拷贝区小（18,154 bp），由两个反向重复区(IRa/IRb；37543个基点)。基因组编码140个基因，包括90个蛋白质编码基因，42个转移RNA （tRNA）基因和8个核糖体RNA （rRNA）基因。基于22种植物叶绿体全基因组的系统发育分析表明，京西秋海棠与其他Coelocentrum科属属同属，是秋海棠的姊妹种。本研究将为进一步开展海棠属植物的物种鉴定、流行遗传、多样性研究和系统发育研究提供有价值的遗传信息。

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引用次数: 0

Characterization of the complete chloroplast genome of medicinal species Duhaldea nervosa (Asteroideae, Asteraceae) and its phylogenetic analysis 药用植物星形蕨科（asteroidea, Asteraceae）全叶绿体基因组特征及其系统发育分析

IF 0.6 Q4 BIODIVERSITY CONSERVATION

Journal of Asia-Pacific Biodiversity

Pub Date : 2025-01-09 DOI: 10.1016/j.japb.2024.12.005

Zhimei Xing , Mingxue Ma , Liuwei Xu , Wei Kang , Shufan Zhou , Yuefei Wang , Abdullah , Xiaoxuan Tian

Here, we de novo assembled and analyzed the chloroplast (cp) genome of Duhaldea nervosa (Asteroideae, Asteraceae) that showed a quadripartite structure with a total length of 150,916 base pairs (bps). It consisted of a pair of inverted repeats (IRa and IRb each of 24,927 bp), which separated the small single copy (18,188 bp) and large single copy (82,874 bp) regions. The genome contained 112 unique genes, including 4 ribosomal RNA, 79 protein-coding genes (CDS), and 29 transfer RNA genes. Phylogenetic analysis among 79 species revealed a sister relationship between D. nervosa and Duhaldea cappa, which lay within the tribe Inuleae. At the tribal level, our phylogenetic findings indicated a sister relationship of “Astereae with Anthemideae” and “Gnaphalieae with Calenduleae” and rooted by Senecioneae. This study enhanced the understanding of cp genome evolution and phylogeny within the Asteraceae family.

本文对菊科植物Duhaldea nervosa （Asteroideae, Asteraceae）的叶绿体基因组进行了从头组装和分析，该基因组为四部结构，总长度为150,916碱基对（bps）。它由一对反向重复序列（IRa和IRb各为24,927 bp）组成，将小单拷贝（18,188 bp）和大单拷贝（82,874 bp）区分开。基因组包含112个独特基因，包括4个核糖体RNA， 79个蛋白质编码基因（CDS）和29个转移RNA基因。对79个种的系统发育分析表明，D. nervosa与Duhaldea cappa有亲缘关系，属于因纽莱科（Inuleae）。在部落水平上，我们的系统发育发现“菊科与菊花科”和“Gnaphalieae与calendleae”具有姐妹关系，并以Senecioneae为根。本研究提高了对菊科植物cp基因组进化和系统发育的认识。

引用次数: 0

The complete chloroplast genome of Swertia obtusa (Gentianaceae) in Mongolia 蒙古獐牙菜（龙胆科）叶绿体全基因组

IF 0.7 Q4 BIODIVERSITY CONSERVATION

Journal of Asia-Pacific Biodiversity

Pub Date : 2024-12-24 DOI: 10.1016/j.japb.2024.12.001

Dashzeveg Oyuntsetseg , Nudkhuu Nyamgerel , Shukherdorj Baasanmunkh , Batlai Oyuntsetseg , Gun-Aajav Bayarmaa , Hyeok Jae Choi

Swertia obtusa Ledebour is a perennial herb distributed in China (Xinjiang), Kazakhstan, Mongolia, and Russia. In this study, we sequenced the complete chloroplast genome of S. obtusa using high-throughput sequencing. The length of this genome was 153,874 bp, consisting of a pair of inverted repeats (IRs, 25,855 bp), a large single-copy region (LSC, 83,843 bp), and a small single-copy region (SSC, 18,321 bp). The genome had 113 unique genes, consisting of 4 ribosomal RNA (rRNA), 30 transfer RNA (tRNA), and 79 protein coding sequence genes. A total of 42 simple sequence repeats (SSRs) were discovered, primarily in the intergenic spacer region. The analysis revealed 26,255 codons recognized by the anticodons of protein coding genes. Swertia obtusa was classified within the subgenus Swertia based on its entire chloroplast genome.

獐牙菜（Swertia obtusa Ledebour）是一种多年生草本植物，分布在中国（新疆）、哈萨克斯坦、蒙古和俄罗斯。在本研究中，我们利用高通量测序技术对圆叶霉叶绿体全基因组进行了测序。该基因组全长153,874 bp，由一对反向重复序列（IRs, 25,855 bp）、一个大的单拷贝区（LSC, 83,843 bp）和一个小的单拷贝区（SSC, 18,321 bp）组成。基因组有113个独特的基因，包括4个核糖体RNA (rRNA)， 30个转移RNA （tRNA）和79个蛋白质编码序列基因。共发现42个简单重复序列（SSRs），主要位于基因间间隔区。分析结果显示，有26255个密码子被蛋白质编码基因的反密码子识别。根据獐牙菜的叶绿体基因组，将獐牙菜归入獐牙菜亚属。

引用次数: 0

Unveiling group dynamics and habitat utilization patterns of invasive sika deer (Cervus nippon) in Jeju Island, South Korea: Insights from camera trapping analysis 揭示济州岛入侵梅花鹿（Cervus nippon）的群体动态和栖息地利用模式：来自相机捕获分析的见解

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Journal of Asia-Pacific Biodiversity

Pub Date : 2024-12-23 DOI: 10.1016/j.japb.2024.12.004

Maniram Banjade , Young-Hun Jeong , Do-Hun Lee , Hong-Shik Oh

Invasive species pose significant threats to native ecosystems and species, especially on islands with high rates of endemism and susceptibility. The introduction of the sika deer (Cervus nippon) to South Korea has negatively impacted its wild ecosystems and native species, including those on Jeju Island. However, there is limited knowledge of sika deer ecology to inform effective species management and policy decisions. To bridge this knowledge gap, we examined the group dynamics, with a focus on age-sex class structure, group size, and habitat utilization variation of sika deer on Jeju Island, South Korea, by analyzing three years of camera trap data. Our findings illuminate a slightly skewed sex ratio toward females, with adults and yearlings comprising the dominant age class. The annual relative abundance of each age class showed a single activity peak in May for both yearlings and adults, whereas a peak was observed in August for juveniles. Group sizes ranged from to 1–7 individuals, with a mean group size of 3.72 ± 1.25 individuals. Habitat utilization patterns differed by age class, with juvenile abundance escalating with increasing distance from the forest edge, whereas adult females were active close to human settlements. This study highlights the critical importance of controlling the adult female population as a direct strategy for mitigating conflicts arising from sika deer habitat utilization. By addressing the unique behavior and habitat preferences of sika deer, our findings provide valuable insights for informed decision-making, effective species management, and preservation of native ecosystems, particularly on Jeju Island.

入侵物种对当地生态系统和物种构成重大威胁，特别是在地方特有率高和易感性高的岛屿上。梅花鹿（Cervus nippon）被引入韩国，对包括济州岛在内的野生生态系统和本地物种造成了负面影响。然而，人们对梅花鹿生态学的了解有限，无法为有效的物种管理和政策决策提供信息。为了弥补这一知识空白，我们通过分析3年的相机陷阱数据，研究了韩国济州岛梅花鹿的群体动态，重点研究了年龄-性别阶层结构、群体规模和栖息地利用变化。我们的研究结果表明，雌性的性别比例略有倾斜，成年和一岁的幼崽占主导地位。各年龄级的年相对丰度在5月和8月出现高峰，而幼鸟的年相对丰度在8月出现高峰。种群大小为1 ~ 7只，平均为3.72±1.25只。不同年龄层的生境利用模式不同，幼鱼丰度随距离森林边缘的增加而增加，而成年雌鱼则在靠近人类住区的地方活跃。本研究强调了控制成年雌梅花鹿数量作为缓解梅花鹿栖息地利用冲突的直接策略的重要性。通过研究梅花鹿的独特行为和栖息地偏好，我们的研究结果为明智的决策、有效的物种管理和本地生态系统的保护提供了有价值的见解，特别是在济州岛。

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