To introgress the good fiber quality and yield from Gossypium barbadense into a commercial Upland cotton variety, a high-density simple sequence repeat (SSR) genetic linkage map was developed from a BC1 F1 population of Gossypium hirsutum × Gossypium barbadense. The map comprised 2,292 loci and covered 5115.16 centiMorgan (cM) of the cotton AD genome, with an average marker interval of 2.23 cM. Of the marker order for 1,577 common loci on this new map, 90.36% agrees well with the marker order on the D genome sequence genetic map. Compared with five published high-density SSR genetic maps, 53.14% of marker loci were newly discovered in this map. Twenty-six quantitative trait loci (QTLs) for lint percentage (LP) were identified on nine chromosomes. Nine stable or common QTLs could be used for marker-assisted selection. Fifty percent of the QTLs were from G. barbadense and increased LP by 1.07%-2.41%. These results indicated that the map could be used for screening chromosome substitution segments from G. barbadense in the Upland cotton background, identifying QTLs or genes from G. barbadense, and further developing the gene pyramiding effect for improving fiber yield and quality.

Background Verticillium wilt (VW) caused by Verticillium dahliae (Kleb) is one of the most destructive diseases of cotton. The identification of highly resistant QTLs or genes in the whole cotton genome is quite important for developing a VW-resistant variety and for further molecular design breeding.ResultsIn the present study, BC1F1, BC1S1, and BC2F1 populations derived from an interspecific backcross between the highly resistant line Hai1 (Gossypium barbadense L.) and the susceptible variety CCRI36 (G. hirsutum L.) as the recurrent parent were constructed. Quantitative trait loci (QTL) related to VW resistance were detected in the whole cotton genome using a high-density simple sequence repeat (SSR) genetic linkage map from the BC1F1 population, with 2292 loci covering 5115.16 centiMorgan (cM) of the cotton (AD) genome, and the data concerning VW resistance that were obtained from four dates of BC2F1 in the artificial disease nursery and one date of BC1S1 and BC2F1 in the field. A total of 48 QTLs for VW resistance were identified, and 37 of these QTLs had positive additive effects, which indicated that the G. barbadense alleles increased resistance to VW and decreased the disease index (DI) by about 2.2–10.7. These QTLs were located on 19 chromosomes, in which 33 in the A subgenome and 15 QTLs in the D subgenome. The 6 QTLs were found to be stable. The 6 QTLs were consistent with those identified previously, and another 42 were new, unreported QTLs, of which 31 QTLs were from G. barbadense. By meta-analysis, 17 QTL hotspot regions were identified and 10 of them were new, unreported hotspot regions. 29 QTLs in this paper were in 12 hotspot regions and were all from G. barbadense.ConclusionsThese stable or consensus QTL regions warrant further investigation to better understand the genetics and molecular mechanisms underlying VW resistance. This study provides useful information for further comparative analysis and marker-assisted selection in the breeding of disease-resistant cotton. It may also lay an important foundation for gene cloning and further molecular design breeding for the entire cotton genome.Electronic supplementary materialThe online version of this article (doi:10.1186/s12864-016-3128-x) contains supplementary material, which is available to authorized users.

Magmatic arcs are natural laboratories for studying the growth of continental crusts. The Gangdese arc, southern Tibet, is an archetypal continental magmatic arc that formed due to Mesozoic subduction of the Neo-Tethyan oceanic lithosphere; however, its formation and evolution remain controversial. In this contribution, we combine newly reported and previously published geochemical and geochronological data for Mesozoic magmatic rocks in the eastern Gangdese arc to reveal its magmatic and metamorphic histories and review its growth, thickening, and fractionation and mineralization processes. Our results show that: (1) the Gangdese arc consists of multiple Mesozoic arc-type magmatic rocks and records voluminous juvenile crustal growth. (2) The Mesozoic magmatic rocks experienced Late Cretaceous granulite-facies metamorphism and partial melting, thus producing hydrous and metallogenic element-rich migmatites that form a major component of the lower arc crust and are a potential source for the Miocene ore-hosting porphyries. (3) The Gangdese arc witnessed crustal thickening and reworking during the Middle to Late Jurassic and Late Cretaceous. (4) Crystallization-fractionation of mantle-derived magmas and partial melting of thickened juvenile lower crust induced intracrustal chemical differentiation during subduction. We suggest that the Gangdese arc underwent the following main tectonic, magmatic, and metamorphic evolution processes: normal subduction and associated mantle-derived magmatism during the Late Triassic to Jurassic; shallow subduction during the Early Cretaceous and an associated magmatic lull; and mid-oceanic ridge subduction, high-temperature metamorphism and an associated magmatic flare-up during the early Late Cretaceous, and flat subduction, high-temperature and high-pressure metamorphism, partial melting, and associated crust-derived magmatism during the late Late Cretaceous. Key issues for further research include the temporal and spatial distributions of Mesozoic magmatic rocks, the evolution of the components and compositions of arc crust over time, and the metallogenic processes that occur in such environments during subduction.

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Magmatic arcs are the primary sites of growth of post-Archean continental crust; however, the mechanisms and processes for transforming primary arc crust into mature continental crust are subject to disagreement. We conducted a detailed petrologic and geochronological study on mafic and felsic migmatites from the eastern Gangdese magmatic arc, which is typical of continental arcs worldwide. The studied mafic migmatites contain amphibole, garnet, plagioclase, epidote, white mica, quartz, rutile and ilmenite in melanosomes, and plagioclase, garnet, epidote, amphibole, white mica and quartz in leucosomes. The leucosomes occur as diffuse patches, concordant bands, or concordant and discordant networks and veins in the melanosomes. The migmatites have protolith ages between ~157 Ma and ~86–87 Ma, and metamorphic ages of ~83–87 Ma, and underwent high-pressure granulite-facies metamorphism at peak P–T conditions of ~850–880 °C and 15–17 kbar. Heating, burial, and associated partial melting preceded near-isobaric cooling with residual melt crystallization. Significant melt (>16 wt. %) generated during heating and loading had a granitic composition. Compositional comparison to low-grade meta-gabbros implies that any extracted melt had adakitic affinities (high Sr/Y and highly fractionated REE patterns). The eastern Gangdese magmatic arc experienced crustal thickening during Late Cretaceous late-stage evolution of the arc due to magma loading, and tectonic shortening and thrusting of the arc crust. Crustal thickening and chemical differentiation of the Gangdese arc occurred during late subduction of the Neo-Tethys, prior to the India – Asia collision. Metamorphism nearly completely erased all prior igneous mineralogy and mineral chemistry, and consequent partial melting represents a potential source for Late Cretaceous granitoids of the upper arc crust. Although prior studies demonstrate the significance of fractional crystallization, deep-seated metamorphic processes largely drove chemical differentiation to produce mature continental crust in the Gangdese arc during the late Cretaceous.

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