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Genomic studies of drought tolerance mechanisms of a typical plant in Heihe basin - dataset II (2014-2015)

一. Data overview This data interchange is the second data interchange of "genomics research on drought tolerance mechanism of typical desert plants in heihe basin", a key project of the major research program of "integrated research on eco-hydrological processes in heihe basin".The main research goal of this project is a typical desert sand Holly plants as materials, using the current international advanced a new generation of gene sequencing technology to the whole genome sequence and gene transcription of Holly group sequence decoding, so as to explore related to drought resistance gene and gene groups, and transgenic technology in model plants such as arabidopsis and rice) verify its drought resistance. 二, data content 1.Sequencing of the genome and transcriptome of lycophylla SPP. The genome size of Mongolian Holly was about 926 Mb, GC content 36.88%, repeat sequence proportion 66%, genome heterozygosity rate 0.56%, which indicated that the genome has many repeat sequences, high heterozygosity and belongs to a complex genome.Based on the predicted sequence results, we subsequently carried out in-depth sequencing of the genome of lysiopsis SPP. The obtained data were assembled to obtain a 937 Mb genome sequence (table 1), which was basically the same as the predicted genome size.Through to the sand Holly transcriptome sequencing and sequence assembly (table 2), received more than 77000 genes coding sequence (Unigene), these sequences are comments found that most of the gene sequence and legumes and soybean, garbanzo beans and bean has a higher similarity (figure 1), consistent with the fact of sand ilex leguminous plants. 一), and the sand Holly is a leguminous plants consistent with the fact. 2.Discovery of simple repeat sequence (SSR) molecular markers of sand Holly: There is a transcriptome data set of sand Holly in the network public database, and the sample collection site is zhongwei city, ningxia.But this is the location of the project team samples in minqin county, gansu province, in order to study whether this sand in different areas of the Holly sequence has sequence polymorphism, we first identify the minqin county plant samples in the genomes of simple sequence repeat (SSR) markers (table 3), and then, compares the transcriptome sequences of plant sample, found in part of SSR molecular marker polymorphism (table 4), these molecular markers could be used for the species of plant genetic map construction, QTL mapping and genetic diversity analysis in the study. 三, data processing instructions Sample collection place: minqin county, gansu province, latitude and longitude: N38 ° 34 '25.93 "E103 ° 08' 36.77".Genome sequencing: a total of 8 genomic DNA libraries of different sizes were constructed and determined by Illumina HiSeq 2500 instrument.Transcriptome sequencing: a library of 24 transcriptome mrnas was constructed and determined by Illumina HiSeq 4000. 四, the use of data and meaning We selected a typical desert plant as the research object, from the Angle of genomics, parse the desert plant genome and transcriptome sequences, excavated its precious drought-resistant gene resources, and to study their drought resistance mechanism of favorable sand Holly this ancient and important to the utilization of plant resources, as well as the heihe river basin of drought-resistant plant genetic breeding, ecological restoration and sustainable development.


1:150,000 desertification type and land division map of Naiman Banner

This data is digitized from the "Naiman Banner Desertification Types and Land Consolidation Zoning Map" of the drawing. The specific information of this map is as follows: * Editors: Zhu Zhenda and Qiu Xingmin * Editor: Feng Yushun * Re-photography and Mapping: Feng Yushun, Liu Yangxuan, Wen Zi Xiang, Yang Taiyun, Zhao Aifen, Wang Yimou, Li Weimin, Zhao Yanhua, Wang Jianhua * Field trips: Qiu Xingmin and Zhang Jixian * Cartographic unit: compiled by Desert Research Office of Chinese Academy of Sciences * Publishing House: Shanghai China Printing House * Scale: 1: 150000 * Published: May 1984 * Legend: Severe Desertification Land, Intensely Developed Desertification Land, Developing Desertification Land, Potential Desertification Land, Non-desertification Land, Fluctuating Sandy Loess Plain, Forest and Shrub, Saline-alkali Land, Mountain Land, Cultivated Land and Midian Land 2. File Format and Naming Data is stored in ESRI Shapefile format, including the following layers: Naiman banner desertification type map, rivers, roads, reservoirs, railways, zoning 3. Data Attributes Desertification Class Vegetation Background Class Desertified land and cultivated sand dunes under development. Midland in Saline-alkali Land Severely desertified land Reservoir Trees and shrubbery Mountain Strongly developing desertified land Potential desertified land Lakes Non-desertification land Undulating sand-loess plain 2. Projection information: Angular Unit: Degree (0.017453292519943295) Prime Meridian: Greenwich (0.000000000000000000) Datum: D_Beijing_1954 Spheroid: Krasovsky_1940 Semimajor Axis: 6378245.000000000000000000 Semiminor Axis: 6356863.018773047300000000 Inverse Flattening: 298.300000000000010000


The investigation data on the ground and underground biomass and distribution characteristics of the desert plant communities (2014)

In the previous project, three different types of desert investigation and observation sites in the lower reaches of Heihe River were set up. Different kinds of desert plants with the same average growth and size as the observation site were selected for the above ground biomass and underground biomass total root survey. The dry weight was the dry weight at 80 ℃, and the root shoot ratio was the dry weight ratio of the underground biomass to the aboveground biomass. Species: Elaeagnus angustifolia, red sand, black fruit wolfberry, bubble thorn, bitter beans, Peganum, Tamarix and so on.


Data of distribution of desert for The QinghaiLake River Basin (2000)

The data is the distribution map of 100,000 deserts in Qinghai Lake Basin. This data uses 2000 TM image as the data source for interpretation, extraction and revision. Remote sensing and geographic information system technology are combined with the mapping requirements of a scale of 1: 100,000 to carry out thematic mapping of deserts, sands and gravelly Gobi. Data attribute table: area (area), perimeter (perimeter), ashm_ (sequence code), class (desert code) and ashm_id (desert code), of which the desert code is as follows: mobile sand 2341010, semi-mobile sand 2341020, semi-fixed sand 2341030, Gobi desert 2342000 and saline-alkali land 2343000.


1:4 million map of the Glaciers, Frozen Ground and Deserts in China (2006)

The compilation basis of frozen soil map includes: (1) frozen soil field survey, exploration and measurement data; (2) aerial photo and satellite image interpretation; (3) topo300 1km resolution ground elevation data; (4) temperature and ground temperature data. Among them, the distribution of permafrost in the Qinghai Tibet Plateau adopts the research results of nanzhuo Tong et al. (2002). Using the measured annual average ground temperature data of 76 boreholes along the Qinghai Tibet highway, regression statistical analysis is carried out to obtain the relationship between the annual average ground temperature and latitude, elevation, and based on this relationship, combined with the gtopo30 elevation data (developed under the leadership of the center for earth resources observation and science and technology, USGS) Global 1 km DEM data) to simulate the annual mean ground temperature distribution over the whole Tibetan Plateau. Taking the annual average ground temperature of 0.5 ℃ as the boundary between permafrost and seasonal permafrost, the boundary between discontinuous Permafrost on the plateau and island Permafrost on the plateau is delimited by referring to the map of ice and snow permafrost in China (1:4 million) (Shi Yafeng et al., 1988); in addition, the division map of Permafrost on the big and small Xing'an Mountains in the Northeast (Guo Dongxin et al., 1981), the distribution map of permafrost and underground ice around the Arctic (b According to rown et al. 1997) and the latest field survey data, the Permafrost Boundary in Northeast China has been revised; the Permafrost Boundary in Northwest mountains mostly uses the boundary defined in the map of ice and snow permafrost in China (1:4 million) (Shi Yafeng et al., 1988). According to the data, the area of permafrost in China is about 1.75 × 106km2, accounting for about 18.25% of China's territory. Among them, alpine permafrost is 0.29 × 106km2, accounting for about 3.03% of China's territory. For more information, please refer to the specification of "1:4 million map of glacial and frozen deserts in China" (Institute of environment and Engineering in cold and dry areas, Chinese Academy of Sciences, 2006)


The annual ecological investigation data of desert vegetation with different desert types in Heihe river basin in 2013

At the end of September and the beginning of October, 2013, desert plants in typical areas of heihe basin stopped their growth period to conduct year-end ecological survey. There are altogether 8 survey and observation fields, which are: piedmont desert, piedmont gobi, middle reaches desert, middle reaches gobi, middle reaches desert, lower reaches desert, lower reaches gobi and lower reaches desert, with a size of 40m×40m. Three 20m×20m large quadrats were fixed in each observation field, named S1, S2 and S3, and regular shrub surveys were conducted.Each large quadrat was fixed with 4 5m x 5m small quadrats, named A, B, C, D, for the herbal survey.


Measurement data of horizontal gas exchange of photosynthetic organs of desert plants in different habitats in Heihe River basin (2013)

As determined in mid-august 2013, planting species: bubbly spines (different habitats are mid-range intermountain lowland and gobi), red sand (different habitats are mid-range gobi and downstream gobi). Using the brother company of LI - 6400 Portable Photosynthesis System (Portable Photosynthesis System, LI - COR, USA) and LI - 3100 leaf area meter, etc., to the desert plant photosynthetic physiological characteristics were observed. The symbolic meaning of the observed data is as follows: Obs,observation frequency ; Photo ,net photosynthetic rate,μmol CO2•m–2•s–1; Cond stomatal conductance,mol H2O•m–2•s–1 ; Ci, Intercellular CO2 concentration, μmol CO2•mol-1; Trmmol,transpiration rate,mmol H2O•m–2•s–1; Vpdl,Vapor pressure deficit,kPa; Area,leaf area,cm2; Tair,free air temperature ,℃; Tleaf,Leaf temperature,℃; CO2R,Reference chamber CO2 concentration,μmol CO2•mol-1; CO2S,Sample chamber CO2 concentration,μmol CO2•mol-1; H2OR,Reference chamber moisture,mmol H2O•mol-1; H2OS,Sample chamber moisture,mmol H2O•mol-1; PARo,photon flux density,μmol•m–2•s–1; RH-R,Reference room air relative humidity,%; RH-S,Relative humidity of air in sample room,%; PARi,Photosynthetic effective radiation,μmol•m–2•s–1; Press,barometric pressure,kPa; Others are the state parameters of the instrument at the time of measurement.


Physiological index analysis data of typical desert plants in Heihe River basin (July 2011)

In mid-july 2011, photosynthetic organs (leaves or assimilating branches) of typical desert plants were collected and brought back to the laboratory in a liquid nitrogen tank for determination. The analysis indexes mainly include soluble protein unit: mg/g;Free amino acid unit: g/g;Chlorophyll content unit: mg/g;Superoxide dismutase (SOD) unit: U/g FW;Catalase (CAT) unit: U/(g•min);POD unit: U/(g•min);Proline (Pro) unit: g/g; Soluble sugar unit: g/g;Malondialdehyde (MDA) is given in moles per liter.


Physiological index analysis data of typical desert plants in Heihe River basin (2011-2012)

On the basis of physiological and biochemical analysis of photosynthetic organs (leaves or assimilating branches) of typical desert plants in heihe river basin collected in mid-july 2011, some photosynthetic organs of desert plants were collected in mid-july 2012 and put into a liquid nitrogen tank and brought back to the laboratory for determination. Physiological analysis indexes mainly include: soluble protein unit: mg/g;Free amino acid unit: g/g;Chlorophyll content unit: mg/g;Superoxide dismutase (SOD) unit: U/g FW;Catalase (CAT) unit: U/(g•min);POD unit: U/(g•min);Proline (Pro) unit: g/g; Soluble sugar unit: g/g;Malondialdehyde (MDA) is given in moles per liter.


Dataset of physilogical ecology for dominants in the Heihe River Basin (2013)

The data set is the physiological and ecological parameters of the dominant species of each ecosystem in Heihe River Basin. According to the requirements of tesim model, the data set divides Heihe River basin into seven ecosystems: deciduous broad-leaved forest ecosystem (BRD), evergreen coniferous forest ecosystem (CNF), agricultural field ecosystem (CRP), desert ecosystem (DST), meadow grassland ecosystem (MDS) Shrubbery ecosystem (SHB) and grassland ecosystem (STP). Some of the data in this data set are based on the measured data, some are obtained by reference documents, but after verification, they are applied to the Heihe River Basin. For the data in this data, each parameter of each ecosystem has three values, which are the value in the model, the minimum value and the maximum value of this parameter. The data can provide input parameters for the ecological process model, and the data set is still in further optimization.