Pyrus Bretschneideri Research Articles

Responses of intracellular Ca2+ and its sensors to Venturia nashicola infection in pear (Pyrus bretschneideri) with differing resistance

In this study, we investigated the role of Ca2+ signaling in pear (Pyrus. bretschneideri Rehd) in response to pear scab (Venturia nashicola Tanak et Yamamota) infection. We analyzed the responses of intracellular [Ca2+] and expression changes of Ca2+ sensor-related genes in two pear cultivars of differing resistance (the resistant ‘Huangguan’ and the susceptible ‘Xuehua’) following V. nashicola infection by using fluorescence microscopy, microplate spectrophotometry, and real-time quantitative PCR assays. Over a 60 min treatment period, V. nashicola induced elevated Ca2+ fluorescence in cell protoplasts (loaded with Fluo-3 AM) from fruit callus cultures of both pear cultivars, but the Ca2+ change patterns differed. Both LaCl3 (a plasma membrane Ca2+ channel inhibitor) and EGTA (an extracellular Ca2+ chelator) inhibited [Ca2+]cyt in both cultivars, while BAPTA-AM (an intracellular Ca2+ chelator) showed no inhibitory effect. The relative expression levels of PbCaM1, PbCaM5, PbCBL1, PbCIPK2, PbCPK1, and PbCPK2 in ‘Huangguan’ pear were significantly upregulated following infection and peaked at 72 post-infection hour. PbCPK1 and PbCPK2 underwent the most intense expression changes of these six genes tested. In ‘Xuehua’ pear, only PbCBL1 and PbCIPK2 were significantly upregulated following infection, while the remaining genes were downregulated to varying degrees. In conclusion, V. nashicola infection induced Ca2+ signaling in pear cells, and changes in [Ca2+]cyt were mainly due to extracellular Ca2+ influx. In ‘Huangguan’ pear, all tested genes related to Ca2+ sensors responded to V. nashicola infection, and might participate in resistance to the scab pathogen.

Pollen trapping and sugar syrup feeding of honey bee (Hymenoptera: Apidae) enhance pollen collection of less preferred flowers.

Pear (Pyrus bretschneideri) is characterized by being self-incompatible and dependent on cross-pollination to set fruit. Honeybee (Apis mellifera) is considered the most important pollinator of pear. Nevertheless, limited pollen transfer has been cited as the main cause of poor fruit set in many pear orchards. Here, we tested the following hypotheses: (i) colony manipulations increase the pollen collection tendency of honeybees and (ii) the proportion of pollen loads being returned to the hive is from the target plant. The technique reliably and rapidly estimates the pollination of honeybees tested under different colony manipulations: (1) using pollen trapping (PT); (2) PT with sugar syrup feeding (SS) (PTSS); (3) SS alone and (4) control without PT and SS. The results clearly show that the pollen collection of honeybees during the experiment was significantly affected (P < 0.05) by colony manipulations. The mean amount of pollen harvested daily was higher for PTSS (19.4 g) and PT (16.4 g) than for SS (12.85 g) and control (8.7 g) colonies. Therefore, PTSS was the most effective treatment for increasing pear pollen collection; other treatments such as PT and SS could also be useful. This study was important for determining how the behavior of honeybee colonies is shaped through colony manipulation to enhance pollen collection of less preferred pear flowers, which is critical when pollination is required.

Effects of 1-MCP on fruit quality and core browning in ‘Yali’ pear during cold storage

‘Yali’ pear (Pyrus bretschneideri Rehd. cv. Yali) is susceptible to core browning after a long term of cold storage. In this study, the effects of 1-methylcyclopropene (1-MCP) with different concentrations (0, 0.25, 0.5, 1.0 μL L−1) on the quality and core browning of ‘Yali’ pear fruit were investigated. The results showed that 1-MCP significantly reduced the ethylene production, kept higher firmness and titratable acidity (TA) content, and lowered core browning. Moreover, the most effective concentration of 1-MCP was found at 1.0 μL L−1. Compared with control, 1.0 μL L−1 1-MCP treatment decreased the content of H2O2, while maintained higher levels of ascorbic acid (AsA) and glutathione (GSH) of core, and meanwhile, it reduced phenolics content and polyphenol oxidase (PPO) activity of core. In addition, among the four encoded the enzyme of PPO genes (PbPPO1, PbPPO4, PbPPO5 and PbPPO6), the expressions of PbPPO1 and PbPPO5 were markedly inhibited by 1-MCP. It suggested that 1-MCP could effectively keep fruit quality, and inhibit core browning which was resulted from the inhibition on accumulation of reactive oxygen species, reduction on phenolics content, PPO activity and its associated genes (PbPPO1 and PbPPO5) expression of core in ‘Yali’ pear during cold storage.

The gene PbTMT4 from pear (Pyrus bretschneideri) mediates vacuolar sugar transport and strongly affects sugar accumulation in fruit.

Tonoplast monosaccharide transporters (TMTs) play important roles in vacuolar sugar accumulation in plants. In this study, six TMT genes (PbTMT1-6) were identified in the Pyrus bretschneideri genome database, and their expression profiles were correlated with soluble sugar contents during the pear (P. bretschneideri cv. Ya Li) fruit development process. Subsequently, PbTMT4 was identified as a strong contributor to fructose, glucose and sucrose accumulation in fructescence of pears. Heterologous expression of PbTMT4, in the hexose transporter-deficient yeast strain EBY.VW4000, facilitated growth in media containing low levels of glucose, fructose, sucrose or sorbitol. In addition, PbTMT4-transformed tomato plants flowered and bore fruit significantly earlier than wild-type (WT) plants, and glucose and fructose levels in mature tomatoes were increased by about 32 and 21% compared with those in WT plants. However, no obvious alterations in sucrose content, plant height and weight per fruit were observed. Finally, subcellular localization experiments in transformed Arabidopsis plants showed that PbTMT4 is localized to tonoplast vesicles of protoplasts. These preliminary results suggest that PbTMT4 participates in vacuolar accumulation of sugars, and thus affects plant growth and development.

Network analysis reveals the co-expression of sugar and aroma genes in the Chinese white pear (Pyrus bretschneideri)

The quality of pear and other fruit affects their economic value by determining their attractiveness to the consumer. For this reason the two most important quality traits, namely the sugar content and the aroma, have been the focus of much research. This research has been conducted both on the biochemical characteristics of sugar and aroma of fruits and on the activity of enzymes related to their metabolism. In this study, by analyzing the transcriptome of pear fruit, we built the first co-expression network of the genes related to sugar metabolism and those related to aroma, to reveal their connections. Genes that encode beta-glucosidases and sorbitol dehydrogenases are shown to be the hub genes within this network. This study has demonstrated the power of such network analysis for the first time in a non-model organism. Our research can lead to new discoveries that go beyond the previous focus on individual genes.

Genome-wide identification and expression analysis of the OSCA gene family in Pyrus bretschneideri

Responses to osmotic change are critical for plant survival, development, and reproduction. Hyperosmolality-induced cytosolic free calcium concentration [(Ca2+)i] increase (OSCAs) proteins have been described as osmosensors in plants and animals. To investigate functional roles of OSCA genes (PbrOSCAs) in pear (Pyrus bretschneideri Rehd.), bioinformatics, and expression analyses of the PbrOSCAs were performed. Sixteen PbrOSCA members were identified in the pear genome. PbrOSCA family members were classified into four clades by sequence alignment and phylogenetic analysis. Moreover, protein structure analysis indicated that the 16 PbrOSCA members shared similar structures with their homologues in Arabidopsis and rice. Multi-transmembrane patterns and ion transport pore sites of PbrOSCAs were conserved, and expression profiles of PbrOSCA varied among tissues and with osmotic stress conditions. In particular, expression levels of six PbrOSCAs gradually increased with time during osmotic stress, suggesting that PbrOSCAs may play regulatory roles in plant osmotic stress responses.

PbGLR3.3 Regulates Pollen Tube Growth in the Mediation of Ca2+ Influx in Pyrus bretschneideri

Glutamate receptors (GluRs) are sensors of extracellular signals; they play important roles in the regulation of multiple physiological and developmental processes in eukaryotes. However, their functional roles in fruit trees are largely unknown. Here, based on the pear genome database, which was established in this lab, we identified 34 PbGLRs in pear (Pyrus bretschneideri Rehd), and they were divided into four groups by phylogenetic analysis. In comparisons with other groups, phylogenetic analyses and structural information of the PbGLRs in group 3 suggest that these genes underlie specific characteristics. Among the ten genes in group 3, we observed that the expression of PbGLR3.3 increased gradually during pollen germination and continuous growth, indicating that this gene might play a vital role in the development of pear pollen tubes. Using a combination of antisense oligodeoxy nucleotides and Ca2+-sensitive fluorescent probe methods, we verified that PbGLR3.3 participates in DSer-elicited intracellular Ca2+ signaling and Ca2+ regulation of growth in pear pollen tubes.

Comparative and Expression Analysis of Ubiquitin Conjugating Domain-Containing Genes in Two Pyrus Species.

Ripening affects the nutritional contents and quality of fleshy fruits, and it plays an important role during the process of fruit development. Studies have demonstrated that ubiquitin-conjugating (UBC or E2) genes can regulate fruit ripening, but the characterization of UBCs in pear is not well documented. The recently published genome-wide sequences of Pyrus bretschneideri and Pyrus communis have allowed a comprehensive analysis of this important gene family in pear. Using bioinformatics approaches, we identified 83 (PbrUBCs) and 84 (PcpUBCs) genes from P. bretschneideri and P. communis, respectively, which were divided into 13 subfamilies. In total, 198 PbrUBC paralogous, 215 PcpUBC paralogous, and 129 orthologous gene pairs were detected. Some paralogous gene pairs were found to be distributed on the same chromosome, suggesting that these paralogs may be caused by tandem duplications. The expression patterns of most UBC genes were divergent between Pyrus bretschneideri and Pyrus communis during pear fruit development. Remarkably, the transcriptome data showed that UBC genes might play a more important role in fruit ripening for further study. This is the first report on the systematic analysis of two Pyrus UBC gene families, and these data will help further study the role of UBC genes in fruit development and ripening, as well as contribute to the functional verification of UBC genes in pear.

Genome-wide survey and expression analysis of the SLAC/SLAH gene family in pear (Pyrus bretschneideri) and other members of the Rosaceae

S-type anion channels, which play important roles in plant anion (such as nitrate and chloride) transport, growth and development, abiotic stress responses and hormone signaling. However, there is far less information about this family in Rosaceae species. We performed a genome-wide analysis and identified SLAC/SLAH gene family members in pear (Pyrus bretschneideri) and four other species of Rosaceae. A total of 21 SLAC/SLAH genes were identified from the five Rosaceae species. Based on the structural characteristics and a phylogenetic analysis of these genes, the SLAC/SLAH gene family could be classified into three main groups. Transcriptome data demonstrated that PbrSLAC/SLAH genes were detected in all parts of the pear. PbrSLAC/SLAH genes were only located on the plasma membrane in transient expression experiments in Arabidopsis protoplasts cells. These results provide valuable information that increases our understanding of the evolution, expression and functions of the SLAC/SLAH gene family in higher plants.

A new insight into the evolution and functional divergence of FRK genes in Pyrus bretschneideri.

In plants, plant fructokinases (FRKs) are considered to be the main gateway of fructose metabolism as they can phosphorylate fructose to fructose-6-phosphate. Chinese white pears (Pyrus bretschneideri) are one of the popular fruits in the world market; sugar content is an important factor affecting the quality of the fruit. We identified 49 FRKs from four Rosaceae species; 20 of these sequences were from Chinese white pear. Subsequently, phylogenic relationship, gene structure and micro-collinearity were analysed. Phylogenetic and exon–intron analysis classified these FRKs into 10 subfamilies, and it was aimed to further reveal the variation of the gene structure and the evolutionary relationship of this gene family. Remarkably, gene expression patterns in different tissues or different development stages of the pear fruit suggested functional redundancy for PbFRKs derived from segmental duplication or genome-wide duplication and sub-functionalization for some of them. Additionally, PbFRK11, PbFRK13 and PbFRK16 were found to play important roles in regulating the sugar content in the fruit. Overall, this study provided important insights into the evolution of the FRK gene family in four Rosaceae species, and highlighted its roles in both pear tissue and fruits. Results presented here provide the appropriate candidate of PbFRKs that might contribute to fructose efflux in the pear fruit.

Effects of 1-methylcyclopropene and modified atmosphere packaging on fruit quality and superficial scald in Yali pears during storage

The Yali pear (Pyrus bretschneideri Rehd.) is susceptible to superficial scald during prolonged cold storage and at shelf life. This study investigated the effects of 1-methylcyclopropene (1-MCP) and modified atmosphere packaging (MAP) on changes of fruit quality and superficial scald during cold storage and at shelf life in Yali pear. Compared with MAP, the combination of MAP and 1-MCP (MAP+1-MCP) treatment reduced the carbon dioxide and ethylene content inside the packaging bag. The 1-MCP, MAP, and MAP+1-MCP treatments reduced the superficial scald index, malondialdehyde content, O2−· production rate and relative conductivity and inhibited the accumulation of α-farnesene and conjugated trienes in the peel. 1-MCP and MAP+1-MCP treatments maintained a higher phenolic content and enhanced the catalase and superoxide dismutase activities in the fruit, while reduced activities of lipoxygenase and polyphenol oxidase in the peel preceding the onset of superficial scald. Comprehensive analysis indicated that the MAP+1-MCP treatment is the most effective method tested for improving the quality of Yali pears during cold storage and at shelf life.

Genome-Wide analysis of aluminum-activated malate transporter family genes in six rosaceae species, and expression analysis and functional characterization on malate accumulation in Chinese white pear

Aluminum-activated malate transporters (ALMTs) exhibit a variety of physiological roles in plants to regulate fruit quality, but the evolutionary history of the ALMT family in the Rosaceae species remains unknown. In this study, a total of 113 ALMT homologous genes were identified from six Rosaceae species (Pyrus bretschneideri, Malus × domestica, Prunus persica, Fragaria vesca, Prunus mume, and Pyrus communis), and 27 of these sequences came from Chinese white pear, designated PbrALMT. Based on the phylogenetic analysis, we divided these ALMT genes into three main clusters (A–C). Conserved domain analysis indicated that all PbrALMT proteins contained the ALMT domain and the FUSC_2 domain, and fewer proteins included the FUSC domain. The results of subcellular localization experiments showed that parts of PbrALMT proteins containing the FUSC domain were located in the membrane. Collinearity analysis revealed that segmental and dispersed duplications were the primary forces underlying ALMT gene family expansion in the Rosaceae. Calculation of Ka/Ks between the paralogous pairs indicated that all of the genes in the PbrALMT family have evolved under negative selection. Combining the changes of malate content and transcriptome data analysis, five genes belonging to Cluster B were chosen for qRT-PCR, and the results revealed that Pbr020270.1, as a candidate gene, may play important roles in malate accumulation during pear fruit development. Further transgenic assay confirmed the above conclusion. The present study provides a foundation to better understand the molecular evolution of ALMT genes in pear and the functional characterization of these genes in the future.

Horizontal transfers of LTR retrotransposons in seven species of Rosales.

Horizontal transposable element transfer (HTT) events have occurred among a large number of species and play important roles in the composition and evolution of eukaryotic genomes. HTTs are also regarded as effective forces in promoting genomic variation and biological innovation. In the present study, HTT events were identified and analyzed in seven sequenced species of Rosales using bioinformatics methods by comparing sequence conservation and Ka/Ks value of reverse transcriptase (RT) with 20 conserved genes, estimating the dating of HTTs, and analyzing the phylogenetic relationships. Seven HTT events involving long terminal repeat (LTR) retrotransposons, two HTTs between Morus notabilis and Ziziphus jujuba, and five between Malus domestica and Pyrus bretschneideri were identified. Further analysis revealed that these LTR retrotransposons had functional structures, and the copy insertion times were lower than the dating of HTTs, particularly in Mn.Zj.1 and Md.Pb.3. Altogether, the results demonstrate that LTR retrotransposons still have potential transposition activity in host genomes. These results indicate that HTT events are another strategy for exchanging genetic material among species and are important for the evolution of genomes.

Characterization of the glutathione S-transferase (GST) gene family in Pyrus bretschneideri and their expression pattern upon superficial scald development

Glutathione S-transferases (GSTs) proposedly play a crucial role in the development of superficial scald in pear fruit; however, the specific member from pear GST gene family, which plays an important role in this process, has not been identified until recently. In this study, a total of 62 GST family genes were identified in Pyrus bretschneideri genome, which were distributed across the 14 chromosomes and 8 scaffolds with an uneven distribution. They could be categorized into eight classes based on phylogenetic analysis, and WGD/segmental duplication mainly drove their expansion. The expression of PbrGSTs in ‘Yali’ pear fruit was tissue-specific. In accompany with superficial scald development was the accumulation of reactive oxygen species (ROS) accumulation and loss of ascorbic acid (AsA) in the pericarp of ‘Yali’ pear. Of 47 PbrGSTs detected in the pericarp, the transcription of 25 members were enhanced upon the development of superficial scald, while three in dehydroascorbate reductase (DHAR) class were downregulated in association with lower DHAR activity. In combination with the results of the impact of 1-MCP and MHO fumigation on the expression profile of PbrGSTs, PbrDHAR1, PbrDHAR2 and PbrDHAR4 were selected as the candidate gene involved in superficial scald development.

PbrmiR397a regulates lignification during stone cell development in pear fruit.

SummaryLignified stone cells substantially reduce fruit quality. Therefore, it is desirable to inhibit stone cell development using genetic technologies. However, the molecular mechanisms regulating lignification are poorly understood in fruit stone cells. In this study, we have shown that microRNA (miR) miR397a regulates fruit cell lignification by inhibiting laccase (LAC) genes that encode key lignin biosynthesis enzymes. Transient overexpression of PbrmiR397a, which is the miR397a of Chinese pear (Pyrus bretschneideri), and simultaneous silencing of three LAC genes reduced the lignin content and stone cell number in pear fruit. A single nucleotide polymorphism (SNP) identified in the promoter of the PbrmiR397a gene was found to associate with low levels of fruit lignin, after analysis of the genome sequences of sixty pear varieties. This SNP created a TCA element that responded to salicylic acid to induce gene expression as confirmed using a cell‐based assay system. Furthermore, stable overexpression of PbrmiR397a in transgenic tobacco plants reduced the expression of target LAC genes and decreased the content of lignin but did not change the ratio of syringyl‐ and guaiacyl‐lignin monomers. Consistent with reduction in lignin content, the transgenic plants showed fewer numbers of vessel elements and thinner secondary walls in the remaining elements compared to wild‐type control plants. This study has advanced our understanding of the regulation of lignin biosynthesis and provided useful molecular genetic information for improving pear fruit quality.

Genome-wide characterization of simple sequence repeats in Pyrus bretschneideri and their application in an analysis of genetic diversity in pear

BackgroundPear (Pyrus spp.) is an economically important temperate fruit tree worldwide. In the past decade, significant progress has been made in pear molecular genetics based on DNA research, but the number of molecular markers is still quite limited, which hardly satisfies the increasing needs of geneticists and breeders.ResultsIn this study, a total of 156,396 simple sequence repeat (SSR) loci were identified from a genome sequence of Pyrus bretschneideri ‘Dangshansuli’. A total of 101,694 pairs of SSR primers were designed from the SSR loci, and 80,415 of the SSR loci were successfully located on 17 linkage groups (LGs). A total of 534 primer pairs were synthesized and preliminarily screened in four pear cultivars, and of these, 332 primer pairs were selected as clear, stable, and polymorphic SSR markers. Eighteen polymorphic SSR markers were randomly selected from the 332 polymorphic SSR markers in order to perform a further analysis of the genetic diversity among 44 pear cultivars. The 14 European pears and their hybrid materials were clustered into one group (European pear group); 29 Asian pear cultivars were clustered into one group (Asian pear group); and the Zangli pear cultivar ‘Deqinli’ from Yunnan Province, China, was grouped in an independent group, which suggested that the cultivar ‘Deqinli’ is a distinct and valuable germplasm resource. The population structure analysis partitioned the 44 cultivars into two populations, Pop 1 and Pop 2. Pop 2 was further divided into two subpopulations. Results from the population structure analysis were generally consistent with the results from the UPGMA cluster analysis.ConclusionsThe results of the present study showed that the use of next-generating sequencing to develop SSR markers is fast and effective, and the developed SSR markers can be utilized by researchers and breeders for future pear improvement.

Expansion and evolutionary patterns of GDSL-type esterases/lipases in Rosaceae genomes.

GDSL-type esterase/lipase (GELP) is mainly characterized by a conserved GDSL domain at N terminus, and is widely found in all living species, both prokaryotes and eukaryotes. GELP gene family consists of a wide range of members playing important roles in plant physiological processes, such as development, stress responses, and functional divergences. In our study, 597 GELP genes were identified from six Rosaceae genomes (i.e., Fragaria vesca, Prunus persica, Prunus avium, Prunus mume, Pyrus bretschneideri, and Malus domestica) by a comprehensive analysis. All GELP genes were further divided into ten subfamilies based on phylogenetic tree analysis. Subfamily D and subfamily E are the two largest subfamilies. Microcollinearity analysis suggested that WGD/segmental events contribute to the expansion of the GELP gene family in M. domestica and P. bretschneideri compared to F. vesca, P. persica, P. avium, and P. mume. Some PbGELPs were expressed during the fruit development of P. bretschneideri and pollen tubes, indicating their activity in these tissues. The expression divergence of PbGELP duplication gene pairs suggests that many mutations were allowed during evolution, although the structure of GELP genes was highly conserved. The current study results provided the feasibility to understand the expansion and evolution patterns of GELP in Rosaceae genomes, and highlight the function during P. bretschneideri fruits and pollen tubes development.

Chemical Composition and Crystal Morphology of Epicuticular Wax in Mature Fruits of 35 Pear (Pyrus spp.) Cultivars.

An evaluation of fruit wax components will provide us with valuable information for pear breeding and enhancing fruit quality. Here, we dissected the epicuticular wax concentration, composition and structure of mature fruits from 35 pear cultivars belonging to five different species and hybrid interspecies. A total of 146 epicuticular wax compounds were detected, and the wax composition and concentration varied dramatically among species, with the highest level of 1.53 mg/cm2 in Pyrus communis and the lowest level of 0.62 mg/cm2 in Pyrus pyrifolia. Field emission scanning electron microscopy (FESEM) analysis showed amorphous structures of the epicuticular wax crystals of different pear cultivars. Cluster analysis revealed that the Pyrus bretschneideri cultivars were grouped much closer to Pyrus pyrifolia and Pyrus ussuriensis, and the Pyrus sinkiangensis cultivars were clustered into a distant group. Based on the principal component analysis (PCA), the cultivars could be divided into three groups and five groups according to seven main classes of epicuticular wax compounds and 146 wax compounds, respectively.

The Sucrose Synthase Gene Family in Chinese Pear (Pyrus bretschneideri Rehd.): Structure, Expression, and Evolution.

Sucrose synthase (SS) is a key enzyme involved in sucrose metabolism that is critical in plant growth and development, and particularly quality of the fruit. Sucrose synthase gene families have been identified and characterized in plants various plants such as tobacco, grape, rice, and Arabidopsis. However, there is still lack of detailed information about sucrose synthase gene in pear. In the present study, we performed a systematic analysis of the pear (Pyrus bretschneideri Rehd.) genome and reported 30 sucrose synthase genes. Subsequently, gene structure, phylogenetic relationship, chromosomal localization, gene duplications, promoter regions, collinearity, RNA-Seq data and qRT-PCR were conducted on these sucrose synthase genes. The transcript analysis revealed that 10 PbSSs genes (30%) were especially expressed in pear fruit development. Additionally, qRT-PCR analysis verified the RNA-seq data and shown that PbSS30, PbSS24, and PbSS15 have a potential role in the pear fruit development stages. This study provides important insights into the evolution of sucrose synthase gene family in pear and will provide assistance for further investigation of sucrose synthase genes functions in the process of fruit development, fruit quality and resistance to environmental stresses.

Combined Analyses of Chloroplast DNA Haplotypes and Microsatellite Markers Reveal New Insights Into the Origin and Dissemination Route of Cultivated Pears Native to East Asia.

Asian pear plays an important role in the world pear industry, accounting for over 70% of world total production volume. Commercial Asian pear production relies on four major pear cultivar groups, Japanese pear (JP), Chinese white pear (CWP), Chinese sand pear (CSP), and Ussurian pear (UP), but their origins remain controversial. We estimated the genetic diversity levels and structures in a large sample of existing local cultivars to investigate the origins of Asian pears using twenty-five genome-covering nuclear microsatellite (simple sequence repeats, nSSR) markers and two non-coding chloroplast DNA (cpDNA) regions (trnL-trnF and accD-psaI). High levels of genetic diversity were detected for both nSSRs (HE = 0.744) and cpDNAs (Hd = 0.792). The major variation was found within geographic populations of cultivated pear groups, demonstrating a close relationship among cultivar groups. CSPs showed a greater genetic diversity than CWPs and JPs, and lowest levels of genetic differentiation were detected among them. Phylogeographical analyses indicated that the CSP, CWP, and JP were derived from the same progenitor of Pyrus pyrifolia in China. A dissemination route of cultivated P. pyrifolia estimated by approximate Bayesian computation suggested that cultivated P. pyrifolia from the Middle Yangtze River Valley area contributed the major genetic resources to the cultivars, excluding those of southwestern China. Three major genetic groups of cultivated Pyrus pyrifolia were revealed using nSSRs and a Bayesian statistical inference: (a) JPs; (b) cultivars from South-Central China northward to northeastern China, covering the main pear production area in China; (c) cultivars from southwestern China to southeastern China, including Yunnan, Guizhou, Guangdong, Guangxi, and Fujian Provinces. This reflected the synergistic effects of ecogeographical factors and human selection during cultivar spread and improvement. The analyses indicated that UP cultivars might be originated from the interspecific hybridization of wild Pyrus ussuriensis with cultivated Pyrus pyrifolia. The combination of uniparental DNA sequences and nuclear markers give us a better understanding of origins and genetic relationships for Asian pear groups and will be beneficial for the future improvement of Asian pear cultivars.